Anti-il-1beta antibodies and methods of use

ABSTRACT

The present invention provides anti-IL-1β monoclonal antibodies and related compositions, which may be used in any of a variety of therapeutic methods for the treatment of inflammatory and other diseases.

CROSS-REFERENCE TO RELATED APPLICATION

This application claims the benefit under 35 U.S.C. §119(e) of U.S.Provisional Patent Application No. 61/381,883, filed Sep. 10, 2010,which is incorporated herein by reference in its entirety.

STATEMENT REGARDING SEQUENCE LISTING

The Sequence Listing associated with this application is provided intext format in lieu of a paper copy, and is hereby incorporated byreference into the specification. The name of the text file containingthe Sequence Listing is APEX_(—)011_(—)01WO_ST25.txt. The text file is 8KB, was created on Sep. 9, 2011, and is being submitted electronicallyvia EFS-Web.

BACKGROUND

1. Technical Field

The present invention relates generally to anti-IL-1β antibodies,compositions and methods of using same. The invention is morespecifically related to anti-IL-1β antibodies and their manufacture anduse. Such antibodies are useful, for example, in methods for treatingany of a variety of inflammatory diseases.

2. Description of the Related Art

The IL-1 gene family comprises the agonist cytokines, IL-1α and IL-1β,the natural IL-1 receptor antagonist (IL-1 Ra), and a number ofdifferent proteins that directly regulate IL-1 activity. Both IL-1α andIL-1β are synthesized as cytoplasmic precursors. Although IL-1α remainsinside the cell, IL-1β is efficiently processed and secreted, making itan attractive target for therapeutic antibodies.

IL-1β is a cytokine produced primarily by monocytes/macrophagesfollowing stimulation by bacterial products and immune complexes. Inaddition, IL-1β is an important mediator of the inflammatory response,and is involved in a variety of cellular activities, including cellproliferation, differentiation, and apoptosis by signaling through NF-κBand c-Jun pathways. IL-1β activates the release of proinflammatorycytokines such as TNF and IL-6, and induces a Th17 bias in the cellularadaptive responses. Excess release of IL-1β has been implicated inautoimmune and inflammatory syndromes characterized by attacks ofsterile inflammation of joints, serositis, fever, and skin lesions.

A. IL-1β and Rheumatoid Arthritis (RA)

RA is a chronic inflammatory disease of the joints that is associatedwith destruction of cartilage and bone. In addition to its localdestructive nature, it also can have a pronounced systemic inflammatorycomponent, presenting as fever, headache and fatigue, and may evenaffect other organs such as the skin, liver, spleen and lymph nodes.

IL-1β is a proinflammatory cytokine acting during the autoimmuneprocess. The contribution made by proinflammatory cytokines such astumour necrosis factor (TNF)-α and IL-1 has been validated inpreclinical animal models and in human RA patients (Dinarello 2002).IL-1β plays a key role in driving joint inflammation and destruction inRA. For example, in RA patients, IL-1β is overexpressed in inflamedsynovial tissue, particularly in the lining layer and in subliningcells. IL-1β expression is elevated in draining lymph nodes fromaffected joints (Dayer 2003). In addition, cartilage from RA patientsexhibits upregulation of IL-1β mRNA as compared with normal cartilage.Furthermore, an increased level of IL-1β in synovial fluid has beenfound to correlate with histological features of RA. Further still,treatment with IL-1 Ra (Anakinra, Amgen) improved pathological changesin RA joints (Cunnane 2001) and delayed the progression of joint damage(Bresnihan 2003). This product was approved for treating patients withmoderate to severe rheumatoid arthritis who have inadequate responses toconventional disease-modifying antirheumatic drug (DMARD) therapy. Anantibody against IL-1β (Canakinumab, Novatis) administrated tomethotrexate refractory patients resulted in clinical improvement inACR20 scores.

B. IL-1β and Diabetes

Type 1 diabetes mellitus is a form of diabetes mellitus that resultsfrom autoimmune destruction of insulin-producing β cells of thepancreas. The subsequent lack of insulin leads to increased blood andurine glucose. IL-1β is a proinflammatory cytokine acting during theautoimmune process of type 1 diabetes. For example, IL-1β inhibits βcell function and promotes Fas-triggered apoptosis of β cells byactivating transcription factor NF-κB (Pickersgill 2009).

Type 2 diabetes mellitus is a metabolic disorder that is characterizedby high blood glucose in the context of insulin resistance and relativeinsulin deficiency. Chronic elevation of blood glucose (hyperglycemia)induces pancreatic β cell apoptosis by upregulation of Fas (Maedler2001). This further impairs β cell function, leading to glucotoxicity(Marshak 1999). IL-1β has been implicated in the pathogenesis of type IIdiabetes. For example, high glucose levels resulted in increasedproduction and release of IL-1β, leading to NF-κB activation, Fasupregulation, DNA fragmentation, and impaired β cell function. (Maedler2002). IL-1Ra (Anakinra, Amgen) treatment has been shown to preventhyperglycemia by improving glucose tolerance and insulin secretion inthe diet-induced obesity model of Type 2 diabetes (Sauter 2008).

C. IL-1β and Gout

Gout is caused by abnormal purine metabolism and is associated withdeposition of mono sodium urate (MSU) crystals in joints and periarticular tissues. Similarly, pseudogout arises from deposition ofcalcium pyrophosphate dehydrate crystals, owing to unknown causes.Supporting evidence of IL-1β involvement of Gout includes, for example,MSU and calcium pyrophosphate dihydrate crystals activated the NALP3inflammasome, which causes the production of active IL-1β (Martinon2006). In addition, blocking IL-1β reduced MSU-crystal-inducedinflammation in a mouse model. Further, gout patients who failed torespond to standard anti-inflammatory therapies respond well to thetreatment with 100 mg/day of Anakinra. Finally, antibody against IL-1βprovides superior pain relief with a more rapid onset compared withtriamcinolone acetonide for acute flares in patients with goutyarthritis that are refractory to nonsteroidal anti-inflammatory drugs(So 2007).

D. IL-1β and Cryopyrin-Associated Periodic Syndrome (CAPS)

CAPS comprises a spectrum of apparently distinct, rare, inheritedinflammatory disorders of increasing severity, including the familialcold autoinflammatory syndrome, the Muckle-Wells syndrome, andneonatal-onset multisystem inflammatory disorder. The majority of thesedisorders, caused by missense mutations in the NACHT domain of theNALP3/CIAS1 gene, are prime examples of dysregulated processing andsecretion of IL-1β.

Despite the known involvement of IL-1β in these and other diseaseconditions, there remains an important need for more potent humanizedmonoclonal antibodies that neutralize IL-1β activities and inhibitsIL-1β downstream signaling, thereby preventing IL-1β-associated cytokineproduction and inflammatory diseases. The present invention addressesthese needs and offers other related advantages.

BRIEF SUMMARY

One aspect of the present disclosure provides an isolated antibody, oran antigen-binding fragment thereof, that binds to IL-1β, comprising (i)a heavy chain variable region comprising the VHCDR1 region set forth inSEQ ID NO:3, the VHCDR2 region set forth in SEQ ID NO:4, and the VHCDR3region set forth SEQ ID NO:5; and (ii) a light chain variable regioncomprising the VLCDR1 region set forth in SEQ ID NO:6, the VLCDR2 regionset forth in SEQ ID NO:7, and the VLCDR3 region set forth in SEQ ID NO:8; or a variant of said antibody, or an antigen-binding fragmentthereof, comprising heavy and light chain variable regions identical tothe heavy and light chain variable regions of (i) and (ii) except for upto 8 amino acid substitutions in said CDR regions. In one embodiment ofthe antibodies disclosed herein, the heavy chain variable regioncomprises the amino acid sequence set forth in SEQ ID NO:1. In anotherembodiment, the light chain variable region comprises the amino acidsequence set forth in SEQ ID NO:2.

Another aspect of the present disclosure provides an isolated antibody,or an antigen-binding fragment thereof, that binds to IL-1β, comprisinga heavy chain variable region comprising the amino acid sequence setforth in SEQ ID NO:1. In one embodiment of this aspect, the isolatedantibody, or antigen-binding fragment thereof comprises a light chainvariable region which comprises an amino acid sequence having at least90% identity to the amino acid sequence set forth in SEQ ID NO:2. In afurther embodiment of this aspect, the isolated antibody, or anantigen-binding fragment thereof comprises a light chain variable regionwhich comprises the amino acid sequence set forth in SEQ ID NO:2.

Yet a further aspect of the present disclosure provides an isolatedantibody, or an antigen-binding fragment thereof, that binds to IL-1β,comprising a light chain variable region comprising the amino acidsequence set forth in SEQ ID NO:2. In one embodiment of this aspect, theisolated antibody, or antigen binding fragment thereof comprises a heavychain variable region which comprises an amino acid sequence having atleast 90% identity to the amino acid sequence set forth in SEQ ID NO:1.

In certain embodiments, the isolated antibodies as disclosed herein arehumanized. Illustrative humanized antibody variable regions are setforth in the VH region amino acid sequence of SEQ ID NO:9 and the VLregion amino acid sequence of SEQ ID NO:10.

In one embodiment, an isolated antibody disclosed herein may be singlechain antibody, a ScFv, a univalent antibody lacking a hinge region, aminibody, a Fab, a Fab′ fragment, or a F(ab′)₂ fragment. In certainembodiments, the antibodies herein are whole antibodies.

In another embodiment, the isolated antibodies as described hereincomprise a human IgG constant domain, such as, but not limited to anIgG1 CH1 domain or an IgG1 Fc region.

A further embodiment of the disclosure provides an isolated antibody, oran antigen-binding fragment thereof, that competes with the anti-IL-1βantibodies described herein for binding to IL-1β.

In one embodiment of this disclosure, the isolated antibody, orantigen-binding fragment thereof, that binds IL-1β, binds with a KD of0.199 nM or lower.

The present disclosure also provides isolated polynucleotides encodingthe isolated antibodies, or antigen-binding fragments thereof asdisclosed herein. In another embodiment, the present disclosure providesexpression vectors comprising the isolated polynucleotides encoding theisolated antibodies, or antigen-binding fragments thereof as disclosedherein, and isolated host cells comprising such vectors.

The present disclosure also provides compositions comprising aphysiologically acceptable carrier and a therapeutically effectiveamount of an anti-IL-1β antibody or antigen-binding fragment thereof asdescribed herein.

In another embodiment, the present disclosure provides methods fortreating a patient having a disease associated with aberrant IL-1βexpression, comprising administering to the patient the compositionscomprising a physiologically acceptable carrier and a therapeuticallyeffective amount of an anti-IL-1β antibody or antigen-binding fragmentthereof, thereby treating the disease associated with aberrant IL-1βexpression. In this regard, diseases associated with associated withaberrant IL-1β expression include but are not limited to rheumatoidarthritis, diabetes, Cryopyrin-associated periodic syndrome, gout,chronic obstructive pulmonary disorder, atherosclerosis and vasculitis.

The present invention provides anti-IL-1β antibody amino acid sequences,as well as polynucleotides encoding such antibodies and compositionscomprising the same. The identification of the DNA sequences encodinganti-IL-1β antibodies, and the amino acid sequences of such antibodies,permits the production of potent recombinant anti-IL-1β antibodies athigh yields, for use in the treatment of various inflammatory diseases.

Therefore, according to certain embodiments, the present inventionprovides an isolated polypeptide capable of specifically binding humanIL-1β, comprising an amino acid sequence selected from the groupconsisting of:

(a) an anti-IL-1β antibody sequence set forth in FIG. 1;

(b) a sequence having at least 90% identity to an anti-IL-1β antibodysequence set forth in FIG. 1;

(c) an FR domain of an anti-IL-1β antibody sequence set forth in FIG. 1;

(d) a CDR domain of an anti-IL-1β antibody sequence set forth in FIG. 1;and

(e) a sequence consisting of at least 5 contiguous residues of thevariable region of an anti-IL-1β antibody sequence set forth in FIG. 1.

The invention, in another aspect, provides isolated polynucleotidesencoding a polypeptide as set forth above and/or described herein, aswell as expression vectors and host cells containing the same.

In certain more specific embodiments, the invention provides an isolatedmonoclonal antibody comprising at least a portion of an IL-1β antibodysequence as described herein, such as an IL-1β antibody sequence setforth in FIG. 1, wherein the isolated monoclonal antibody specificallybinds IL-1β. It will be understood, of course, that an antibody of theinvention may be a humanized antibody or a binding fragment or variantthereof.

In another specific embodiment, the invention provides an isolatedantibody that specifically binds to IL-1β and comprises at least the CDRregion of an anti-IL-1β antibody sequence set forth in FIG. 1.

In yet another embodiment, the invention provides an isolated singlechain variable fragment antibody that specifically binds to IL-1β andcomprises at least the CDR region of an anti-IL-1β antibody sequence setforth in FIG. 1.

According to another aspect of the invention, there is provided a methodfor treating a disease mediated by IL-1β comprising administering to asubject in need thereof a therapeutically effective amount of an IL-1βbinding polypeptide or antibody sequence described herein. In certainembodiments, the disease treated according to this method is aninflammatory disease or a cardiovascular disease. In certain morespecific embodiments, the disease is selected from the group consistingof rheumatoid arthritis, diabetes, gout, cryopyrin-associated periodicsyndrome, chronic obstructive pulmonary disorder and variouscardiovascular diseases such as atherosclerosis and vasculitis.

BRIEF DESCRIPTION OF THE SEVERAL VIEWS OF THE DRAWINGS

FIG. 1 shows the heavy and light chain variable regions of an exemplaryhumanized anti-IL-1β antibody (SEQ ID NOs:1 and 2, respectively), withthe CDR sequences indicated. The humanized heavy and light chainvariable region sequences are shown in bold (SEQ ID NOs:9 and 10,respectively). The human germline VH and VL sequences shown are setforth in SEQ ID NOs:13 and 14, respectively.

FIG. 2 shows the dose dependent inhibition of IL-1-β-induced TF-1 cellproliferation by anti-IL-1-β antibodies.

FIG. 3 shows inhibition of IL-1-β1-induced NF-κB nuclear translocation.

FIG. 4 shows the dose dependent inhibition of IL-1β stimulated TF-1cells by humanized Q26 antibody.

FIG. 5 shows cross reactivity results for monkey and mouse IL-1β.

BRIEF DESCRIPTION OF THE SEQUENCES

SEQ ID NO:1 is the amino acid sequence of the VH region of the clone Q26rabbit anti-IL-1β antibody.

SEQ ID NO:2 is the amino acid sequence of the VL region of the clone Q26rabbit anti-IL-1β antibody.

SEQ ID NO:3 is the amino acid sequence of the VHCDR1 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:4 is the amino acid sequence of the VHCDR2 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:5 is the amino acid sequence of the VHCDR3 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:6 is the amino acid sequence of the VLCDR1 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:7 is the amino acid sequence of the VLCDR2 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:8 is the amino acid sequence of the VLCDR3 region of the cloneQ26 rabbit anti-IL-1β antibody.

SEQ ID NO:9 is the amino acid sequence of the humanized sequence of theVH region of the clone Q26 rabbit anti-IL-1β antibody.

SEQ ID NO:10 is the amino acid sequence of the humanized sequence of theVL region of the clone Q26 rabbit anti-IL-1β antibody.

SEQ ID NO:11 is the humanized sequence of the VHCDR1 of the clone Q26rabbit anti-IL-1β antibody.

SEQ ID NO:12 is the humanized sequence of the VLCDR3 of the clone Q26rabbit anti-IL-1β antibody.

SEQ ID NO:13 is the VH human germline sequence used for humanization ofthe Q26 rabbit anti-IL-1β antibody clone.

SEQ ID NO:14 is the VL human germline sequence used for humanization ofthe Q26 rabbit anti-IL-1β antibody clone.

DETAILED DESCRIPTION

The present disclosure relates to antibodies and antigen-bindingfragments thereof the specifically bind to IL-1β, in particularantibodies having specific epitopic specificity and functionalproperties. One embodiment of the invention encompasses specifichumanized antibodies and fragments thereof capable of binding to IL-1β,blocking IL-1β binding with the IL-1β receptor and inhibitingIL-1β-induced downstream cell signaling and biological effects. In morespecific embodiments of the invention, the antibodies described hereinspecifically bind to IL-1β with high affinity and block IL-1β binding toits receptor.

Embodiments of the invention pertain to the use of anti-IL-1β antibodiesor antigen-binding fragments thereof for the diagnosis, assessment andtreatment of diseases and disorders associated with IL-1β, the IL-1βreceptor or aberrant expression thereof. The subject antibodies are usedin the treatment or prevention of inflammatory and autoimmune diseasesincluding rheumatoid arthritis, diabetes, gout, cryopyrin-associatedperiodic syndrome (CAPS) and chronic obstructive pulmonary disorder(COPD), among other diseases.

The practice of the present invention will employ, unless indicatedspecifically to the contrary, conventional methods of virology,immunology, microbiology, molecular biology and recombinant DNAtechniques within the skill of the art, many of which are describedbelow for the purpose of illustration. Such techniques are explainedfully in the literature. See, e.g., Current Protocols in MolecularBiology or Current Protocols in Immunology, John Wiley & Sons, New York,N.Y. (2009); Ausubel et al., Short Protocols in Molecular Biology,3^(rd) ed., Wiley & Sons, 1995; Sambrook and Russell, Molecular Cloning:A Laboratory Manual (3rd Edition, 2001); Maniatis et al. MolecularCloning: A Laboratory Manual (1982); DNA Cloning: A Practical Approach,vol. I & II (D. Glover, ed.); Oligonucleotide Synthesis (N. Gait, ed.,1984); Nucleic Acid Hybridization (B. Hames & S. Higgins, eds., 1985);Transcription and Translation (B. Hames & S. Higgins, eds., 1984);Animal Cell Culture (R. Freshney, ed., 1986); Perbal, A Practical Guideto Molecular Cloning (1984) and other like references.

As used in this specification and the appended claims, the singularforms “a,” “an” and “the” include plural references unless the contentclearly dictates otherwise.

Throughout this specification, unless the context requires otherwise,the word “comprise”, or variations such as “comprises” or “comprising”,will be understood to imply the inclusion of a stated element or integeror group of elements or integers but not the exclusion of any otherelement or integer or group of elements or integers.

Each embodiment in this specification is to be applied mutatis mutandisto every other embodiment unless expressly stated otherwise.

Standard techniques may be used for recombinant DNA, oligonucleotidesynthesis, and tissue culture and transformation (e.g., electroporation,lipofection). Enzymatic reactions and purification techniques may beperformed according to manufacturer's specifications or as commonlyaccomplished in the art or as described herein. These and relatedtechniques and procedures may be generally performed according toconventional methods well known in the art and as described in variousgeneral and more specific references that are cited and discussedthroughout the present specification. Unless specific definitions areprovided, the nomenclature utilized in connection with, and thelaboratory procedures and techniques of, molecular biology, analyticalchemistry, synthetic organic chemistry, and medicinal and pharmaceuticalchemistry described herein are those well known and commonly used in theart. Standard techniques may be used for recombinant technology,molecular biological, microbiological, chemical syntheses, chemicalanalyses, pharmaceutical preparation, formulation, and delivery, andtreatment of patients.

Embodiments of the present invention relate to antibodies that bind tothe IL-1β. In particular, the antibodies described herein specificallybind to IL-1β with unexpectedly high affinity, block receptor binding tothe IL-1β, block receptor activity and have therapeutic utility for thetreatment of diseases associated with aberrant expression IL-1β or theIL-1β receptor. The antibodies described herein also have advantageousproperties such as the ability to inhibit a variety of IL-1β-mediatedbiological effects (e.g., cell proliferation, differentiation, therelease of proinflammatory cytokines such as TNF and IL-6, and apoptosisby signaling through NF-kB and c-Jun pathways), and other IL-1β-mediatedeffects known to the skilled person). The antibodies described hereinmay also have effects on IL-1β receptor internalisation.

Sequences of illustrative antibodies, or antigen-binding fragments, orcomplementarity determining regions (CDRs) thereof, are set forth in SEQID NOs:1-12 (see also FIG. 1).

As is well known in the art, an antibody is an immunoglobulin moleculecapable of specific binding to a target, such as a carbohydrate,polynucleotide, lipid, polypeptide, etc., through at least one epitoperecognition site, located in the variable region of the immunoglobulinmolecule. As used herein, the term encompasses not only intactpolyclonal or monoclonal antibodies, but also fragments thereof (such asdAb, Fab, Fab′, F(ab′)₂, Fv), single chain (ScFv), synthetic variantsthereof, naturally occurring variants, fusion proteins comprising anantibody portion with an antigen-binding fragment of the requiredspecificity, humanized antibodies, chimeric antibodies, and any othermodified configuration of the immunoglobulin molecule that comprises anantigen-binding site or fragment (epitope recognition site) of therequired specificity. “Diabodies”, multivalent or multispecificfragments constructed by gene fusion (WO94/13804; P. Holliger et al.,Proc. Natl. Acad. Sci. USA 90 6444-6448, 1993) are also a particularform of antibody contemplated herein. Minibodies comprising a scFvjoined to a CH3 domain are also included herein (S. Hu et al., CancerRes., 56, 3055-3061, 1996). See e.g., Ward, E. S. et al., Nature 341,544-546 (1989); Bird et al., Science, 242, 423-426, 1988; Huston et al.,PNAS USA, 85, 5879-5883, 1988); PCT/US92/09965; WO94/13804; P. Holligeret al., Proc. Natl. Acad. Sci. USA 90 6444-6448, 1993; Y. Reiter et al.,Nature Biotech, 14, 1239-1245, 1996; S. Hu et al., Cancer Res., 56,3055-3061, 1996.

The term “antigen-binding fragment” as used herein refers to apolypeptide fragment that contains at least one CDR of an immunoglobulinheavy and/or light chains that binds to the antigen of interest, inparticular to the IL-1β. In this regard, an antigen-binding fragment ofthe herein described antibodies may comprise 1, 2, 3, 4, 5, or all 6CDRs of a VH and VL sequence set forth herein from antibodies that bindIL-1β. An antigen-binding fragment of the IL-1β-specific antibodiesdescribed herein is capable of binding to IL-1β. In certain embodiments,an antigen-binding fragment or an antibody comprising an antigen-bindingfragment, prevents or inhibits binding of IL-1β to its receptor andsubsequent signaling events. In certain embodiments, the antigen-bindingfragment binds specifically to and/or inhibits or modulates thebiological activity of human IL-1β.

The term “antigen” refers to a molecule or a portion of a moleculecapable of being bound by a selective binding agent, such as anantibody, and additionally capable of being used in an animal to produceantibodies capable of binding to an epitope of that antigen. An antigenmay have one or more epitopes.

The term “epitope” includes any determinant, preferably a polypeptidedeterminant, capable of specific binding to an immunoglobulin or T-cellreceptor. An epitope is a region of an antigen that is bound by anantibody. In certain embodiments, epitope determinants includechemically active surface groupings of molecules such as amino acids,sugar side chains, phosphoryl or sulfonyl, and may in certainembodiments have specific three-dimensional structural characteristics,and/or specific charge characteristics. In certain embodiments, anantibody is said to specifically bind an antigen when it preferentiallyrecognizes its target antigen in a complex mixture of proteins and/ormacromolecules. An antibody is said to specifically bind an antigen whenthe equilibrium dissociation constant is ≦10⁻⁷ or 10⁻⁸ M. In someembodiments, the equilibrium dissociation constant may be ≦10 ⁻⁹ M or≦10⁻¹⁰ M.

In certain embodiments, antibodies and antigen-binding fragments thereofas described herein include a heavy chain and a light chain CDR set,respectively interposed between a heavy chain and a light chainframework region (FR) set which provide support to the CDRs and definethe spatial relationship of the CDRs relative to each other. As usedherein, the term “CDR set” refers to the three hypervariable regions ofa heavy or light chain V region. Proceeding from the N-terminus of aheavy or light chain, these regions are denoted as “CDR1,” “CDR2,” and“CDR3” respectively. An antigen-binding site, therefore, includes sixCDRs, comprising the CDR set from each of a heavy and a light chain Vregion. A polypeptide comprising a single CDR, (e.g., a CDR1, CDR2 orCDR3) is referred to herein as a “molecular recognition unit.”Crystallographic analysis of a number of antigen-antibody complexes hasdemonstrated that the amino acid residues of CDRs form extensive contactwith bound antigen, wherein the most extensive antigen contact is withthe heavy chain CDR3. Thus, the molecular recognition units areprimarily responsible for the specificity of an antigen-binding site.

As used herein, the term “FR set” refers to the four flanking amino acidsequences which frame the CDRs of a CDR set of a heavy or light chain Vregion. Some FR residues may contact bound antigen; however, FRs areprimarily responsible for folding the V region into the antigen-bindingsite, particularly the FR residues directly adjacent to the CDRs. WithinFRs, certain amino residues and certain structural features are veryhighly conserved. In this regard, all V region sequences contain aninternal disulfide loop of around 90 amino acid residues. When the Vregions fold into a binding-site, the CDRs are displayed as projectingloop motifs which form an antigen-binding surface. It is generallyrecognized that there are conserved structural regions of FRs whichinfluence the folded shape of the CDR loops into certain “canonical”structures—regardless of the precise CDR amino acid sequence. Further,certain FR residues are known to participate in non-covalent interdomaincontacts which stabilize the interaction of the antibody heavy and lightchains.

The structures and locations of immunoglobulin variable domains may bedetermined by reference to Kabat, E. A. et al., Sequences of Proteins ofImmunological Interest. 4th Edition. US Department of Health and HumanServices. 1987, and updates thereof, now available on the Internet(immuno.bme.nwu.edu).

A “monoclonal antibody” refers to a homogeneous antibody populationwherein the monoclonal antibody is comprised of amino acids (naturallyoccurring and non-naturally occurring) that are involved in theselective binding of an epitope. Monoclonal antibodies are highlyspecific, being directed against a single epitope. The term “monoclonalantibody” encompasses not only intact monoclonal antibodies andfull-length monoclonal antibodies, but also fragments thereof (such asFab, Fab′, F(ab′)₂, Fv), single chain (ScFv), variants thereof, fusionproteins comprising an antigen-binding portion, humanized monoclonalantibodies, chimeric monoclonal antibodies, and any other modifiedconfiguration of the immunoglobulin molecule that comprises anantigen-binding fragment (epitope recognition site) of the requiredspecificity and the ability to bind to an epitope. It is not intended tobe limited as regards the source of the antibody or the manner in whichit is made (e.g., by hybridoma, phage selection, recombinant expression,transgenic animals, etc.). The term includes whole immunoglobulins aswell as the fragments etc. described above under the definition of“antibody”.

The proteolytic enzyme papain preferentially cleaves IgG molecules toyield several fragments, two of which (the F(ab) fragments) eachcomprise a covalent heterodimer that includes an intact antigen-bindingsite. The enzyme pepsin is able to cleave IgG molecules to provideseveral fragments, including the F(ab′)₂ fragment which comprises bothantigen-binding sites. An Fv fragment for use according to certainembodiments of the present invention can be produced by preferentialproteolytic cleavage of an IgM, and on rare occasions of an IgG or IgAimmunoglobulin molecule. Fv fragments are, however, more commonlyderived using recombinant techniques known in the art. The Fv fragmentincludes a non-covalent V_(H)::V_(L) heterodimer including anantigen-binding site which retains much of the antigen recognition andbinding capabilities of the native antibody molecule. Inbar et al.(1972) Proc. Nat. Acad. Sci. USA 69:2659-2662; Hochman et al. (1976)Biochem 15:2706-2710; and Ehrlich et al. (1980) Biochem 19:4091-4096.

In certain embodiments, single chain Fv or scFV antibodies arecontemplated. For example, Kappa bodies (III et al., Prot. Eng. 10:949-57 (1997); minibodies (Martin et al., EMBO J. 13: 5305-9 (1994);diabodies (Holliger et al., PNAS 90: 6444-8 (1993); or Janusins(Traunecker et al., EMBO J. 10: 3655-59 (1991) and Traunecker et al.,Int. J. Cancer Suppl. 7: 51-52 (1992), may be prepared using standardmolecular biology techniques following the teachings of the presentapplication with regard to selecting antibodies having the desiredspecificity. In still other embodiments, bispecific or chimericantibodies may be made that encompass the ligands of the presentdisclosure. For example, a chimeric antibody may comprise CDRs andframework regions from different antibodies, while bispecific antibodiesmay be generated that bind specifically to IL-1β through one bindingdomain and to a second molecule through a second binding domain. Theseantibodies may be produced through recombinant molecular biologicaltechniques or may be physically conjugated together.

A single chain Fv (sFv) polypeptide is a covalently linked V_(H)::V_(L)heterodimer which is expressed from a gene fusion including V_(H)- andV_(L)-encoding genes linked by a peptide-encoding linker. Huston et al.(1988) Proc. Nat. Acad. Sci. USA 85(16):5879-5883. A number of methodshave been described to discern chemical structures for converting thenaturally aggregated—but chemically separated—light and heavypolypeptide chains from an antibody V region into an sFv molecule whichwill fold into a three dimensional structure substantially similar tothe structure of an antigen-binding site. See, e.g., U.S. Pat. Nos.5,091,513 and 5,132,405, to Huston et al.; and U.S. Pat. No. 4,946,778,to Ladner et al.

In certain embodiments, an IL-1β binding antibody as described herein isin the form of a diabody. Diabodies are multimers of polypeptides, eachpolypeptide comprising a first domain comprising a binding region of animmunoglobulin light chain and a second domain comprising a bindingregion of an immunoglobulin heavy chain, the two domains being linked(e.g. by a peptide linker) but unable to associate with each other toform an antigen binding site: antigen binding sites are formed by theassociation of the first domain of one polypeptide within the multimerwith the second domain of another polypeptide within the multimer(WO94/13804).

A dAb fragment of an antibody consists of a VH domain (Ward, E. S. etal., Nature 341, 544-546 (1989)).

Where bispecific antibodies are to be used, these may be conventionalbispecific antibodies, which can be manufactured in a variety of ways(Holliger, P. and Winter G. Current Opinion Biotechnol. 4, 446-449(1993)), e.g. prepared chemically or from hybrid hybridomas, or may beany of the bispecific antibody fragments mentioned above. Diabodies andscFv can be constructed without an Fc region, using only variabledomains, potentially reducing the effects of anti-idiotypic reaction.

Bispecific diabodies, as opposed to bispecific whole antibodies, mayalso be particularly useful because they can be readily constructed andexpressed in E. coli. Diabodies (and many other polypeptides such asantibody fragments) of appropriate binding specificities can be readilyselected using phage display (WO94/13804) from libraries. If one arm ofthe diabody is to be kept constant, for instance, with a specificitydirected against antigen X, then a library can be made where the otherarm is varied and an antibody of appropriate specificity selected.Bispecific whole antibodies may be made by knobs-into-holes engineering(J. B. B. Ridgeway et al., Protein Eng., 9, 616-621, 1996).

In certain embodiments, the antibodies described herein may be providedin the form of a UniBody®. A UniBody® is an IgG4 antibody with the hingeregion removed (see GenMab Utrecht, The Netherlands; see also, e.g.,US20090226421). This proprietary antibody technology creates a stable,smaller antibody format with an anticipated longer therapeutic windowthan current small antibody formats. IgG4 antibodies are consideredinert and thus do not interact with the immune system. Fully human IgG4antibodies may be modified by eliminating the hinge region of theantibody to obtain half-molecule fragments having distinct stabilityproperties relative to the corresponding intact IgG4 (GenMab, Utrecht).Halving the IgG4 molecule leaves only one area on the UniBody® that canbind to cognate antigens (e.g., disease targets) and the UniBody®therefore binds univalently to only one site on target cells. Forcertain cancer cell surface antigens, this univalent binding may notstimulate the cancer cells to grow as may be seen using bivalentantibodies having the same antigen specificity, and hence UniBody®technology may afford treatment options for some types of cancer thatmay be refractory to treatment with conventional antibodies. The smallsize of the UniBody® can be a great benefit when treating some forms ofcancer, allowing for better distribution of the molecule over largersolid tumors and potentially increasing efficacy.

In certain embodiments, the antibodies of the present disclosure maytake the form of a nanobody. Nanobodies are encoded by single genes andare efficiently produced in almost all prokaryotic and eukaryotic hostse.g. E. coli (see e.g. U.S. Pat. No. 6,765,087), moulds (for exampleAspergillus or Trichoderma) and yeast (for example Saccharomyces,Kluyvermyces, Hansenula or Pichia (see e.g. U.S. Pat. No. 6,838,254).The production process is scalable and multi-kilogram quantities ofnanobodies have been produced. Nanobodies may be formulated as aready-to-use solution having a long shelf life. The Nanoclone method(see, e.g., WO 06/079372) is a proprietary method for generatingNanobodies against a desired target, based on automated high-throughputselection of B-cells.

In certain embodiments, the anti-IL-1β antibodies or antigen-bindingfragments thereof as disclosed herein are humanized. This refers to achimeric molecule, generally prepared using recombinant techniques,having an antigen-binding site derived from an immunoglobulin from anon-human species and the remaining immunoglobulin structure of themolecule based upon the structure and/or sequence of a humanimmunoglobulin. The antigen-binding site may comprise either completevariable domains fused onto constant domains or only the CDRs graftedonto appropriate framework regions in the variable domains. Epitopebinding sites may be wild type or modified by one or more amino acidsubstitutions. This eliminates the constant region as an immunogen inhuman individuals, but the possibility of an immune response to theforeign variable region remains (LoBuglio, A. F. et al., (1989) ProcNatl Acad Sci USA 86:4220-4224; Queen et al., PNAS (1988)86:10029-10033; Riechmann et al., Nature (1988) 332:323-327).Illustrative methods for humanization of the anti-IL-1β antibodiesdisclosed herein include the methods described in U.S. Pat. No.7,462,697. Illustrative humanized antibodies according to certainembodiments of the present invention comprise the humanized sequencesprovided in SEQ ID NOs:9, 10, 19 and 20.

Another approach focuses not only on providing human-derived constantregions, but modifying the variable regions as well so as to reshapethem as closely as possible to human form. It is known that the variableregions of both heavy and light chains contain threecomplementarity-determining regions (CDRs) which vary in response to theepitopes in question and determine binding capability, flanked by fourframework regions (FRs) which are relatively conserved in a givenspecies and which putatively provide a scaffolding for the CDRs. Whennonhuman antibodies are prepared with respect to a particular epitope,the variable regions can be “reshaped” or “humanized” by grafting CDRsderived from nonhuman antibody on the FRs present in the human antibodyto be modified. Application of this approach to various antibodies hasbeen reported by Sato, K., et al., (1993) Cancer Res 53:851-856.Riechmann, L., et al., (1988) Nature 332:323-327; Verhoeyen, M., et al.,(1988) Science 239:1534-1536; Kettleborough, C. A., et al., (1991)Protein Engineering 4:773-3783; Maeda, H., et al., (1991) HumanAntibodies Hybridoma 2:124-134; Gorman, S. D., et al., (1991) Proc NatlAcad Sci USA 88:4181-4185; Tempest, P. R., et al., (1991) Bio/Technology9:266-271; Co, M. S., et al., (1991) Proc Natl Acad Sci USA88:2869-2873; Carter, P., et al., (1992) Proc Natl Acad Sci USA89:4285-4289; and Co, M. S. et al., (1992) J Immunol 148:1149-1154. Insome embodiments, humanized antibodies preserve all CDR sequences (forexample, a humanized mouse antibody which contains all six CDRs from themouse antibodies). In other embodiments, humanized antibodies have oneor more CDRs (one, two, three, four, five, six) which are altered withrespect to the original antibody, which are also termed one or more CDRs“derived from” one or more CDRs from the original antibody.

In certain embodiments, the antibodies of the present disclosure may bechimeric antibodies. In this regard, a chimeric antibody is comprised ofan antigen-binding fragment of an anti-IL-1β antibody operably linked orotherwise fused to a heterologous Fc portion of a different antibody. Incertain embodiments, the heterologous Fc domain is of human origin. Inother embodiments, the heterologous Fc domain may be from a different Igclass from the parent antibody, including IgA (including subclasses IgA1and IgA2), IgD, IgE, IgG (including subclasses IgG1, IgG2, IgG3, andIgG4), and IgM. In further embodiments, the heterologous Fc domain maybe comprised of CH2 and CH3 domains from one or more of the different Igclasses. As noted above with regard to humanized antibodies, theanti-IL-1β antigen-binding fragment of a chimeric antibody may compriseonly one or more of the CDRs of the antibodies described herein (e.g.,1, 2, 3, 4, 5, or 6 CDRs of the antibodies described herein), or maycomprise an entire variable domain (VL, VH or both).

In certain embodiments, an IL-1β-binding antibody comprises one or moreof the CDRs of the antibodies described herein. In this regard, it hasbeen shown in some cases that the transfer of only the VHCDR3 of anantibody can be performed while still retaining desired specific binding(Barbas et al., PNAS (1995) 92: 2529-2533). See also, McLane et al.,PNAS (1995) 92:5214-5218, Barbas et al., J. Am. Chem. Soc. (1994)116:2161-2162.

Marks et al (Bio/Technology, 1992, 10:779-783) describe methods ofproducing repertoires of antibody variable domains in which consensusprimers directed at or adjacent to the 5′ end of the variable domainarea are used in conjunction with consensus primers to the thirdframework region of human VH genes to provide a repertoire of VHvariable domains lacking a CDR3. Marks et al further describe how thisrepertoire may be combined with a CDR3 of a particular antibody. Usinganalogous techniques, the CDR3-derived sequences of the presentlydescribed antibodies may be shuffled with repertoires of VH or VLdomains lacking a CDR3, and the shuffled complete VH or VL domainscombined with a cognate VL or VH domain to provide an antibody orantigen-binding fragment thereof that binds IL-1β. The repertoire maythen be displayed in a suitable host system such as the phage displaysystem of WO92/01047 so that suitable antibodies or antigen-bindingfragments thereof may be selected. A repertoire may consist of at leastfrom about 10⁴ individual members and upwards by several orders ofmagnitude, for example, to about from 10⁶ to 10⁸ or 10¹⁰ or moremembers. Analogous shuffling or combinatorial techniques are alsodisclosed by Stemmer (Nature, 1994, 370:389-391), who describes thetechnique in relation to a β-lactamase gene but observes that theapproach may be used for the generation of antibodies.

A further alternative is to generate novel VH or VL regions carrying oneor more CDR-derived sequences of the herein described inventionembodiments using random mutagenesis of one or more selected VH and/orVL genes to generate mutations within the entire variable domain. Such atechnique is described by Gram et al (1992, Proc. Natl. Acad. Sci., USA,89:3576-3580), who used error-prone PCR. Another method which may beused is to direct mutagenesis to CDR regions of VH or VL genes. Suchtechniques are disclosed by Barbas et al., (1994, Proc. Natl. Acad.Sci., USA, 91:3809-3813) and Schier et al (1996, J. Mol. Biol.263:551-567).

In certain embodiments, a specific VH and/or VL of the antibodiesdescribed herein may be used to screen a library of the complementaryvariable domain to identify antibodies with desirable properties, suchas increased affinity for IL-1β. Such methods are described, forexample, in Portolano et al., J. Immunol. (1993) 150:880-887; Clarksonet al., Nature (1991) 352:624-628.

Other methods may also be used to mix and match CDRs to identifyantibodies having desired binding activity, such as binding to IL-1β.For example: Klimka et al., British Journal of Cancer (2000) 83:252-260, describe a screening process using a mouse VL and a human VHlibrary with CDR3 and FR4 retained from the mouse VH. After obtainingantibodies, the VH was screened against a human VL library to obtainantibodies that bound antigen. Beiboer et al., J. Mol. Biol. (2000)296:833-849 describe a screening process using an entire mouse heavychain and a human light chain library. After obtaining antibodies, oneVL was combined with a human VH library with the CDR3 of the mouseretained. Antibodies capable of binding antigen were obtained. Rader etal., PNAS (1998) 95:8910-8915 describe a process similar to Beiboer etal above.

These just-described techniques are, in and of themselves, known as suchin the art. The skilled person will, however, be able to use suchtechniques to obtain antibodies or antigen-binding fragments thereofaccording to several embodiments of the invention described herein,using routine methodology in the art.

Also disclosed herein is a method for obtaining an antibody antigenbinding domain specific for IL-1β antigen, the method comprisingproviding by way of addition, deletion, substitution or insertion of oneor more amino acids in the amino acid sequence of a VH domain set outherein a VH domain which is an amino acid sequence variant of the VHdomain, optionally combining the VH domain thus provided with one ormore VL domains, and testing the VH domain or VH/VL combination orcombinations to identify a specific binding member or an antibodyantigen binding domain specific for IL-1β and optionally with one ormore desired properties. The VL domains may have an amino acid sequencewhich is substantially as set out herein. An analogous method may beemployed in which one or more sequence variants of a VL domain disclosedherein are combined with one or more VH domains.

An epitope that “specifically binds” or “preferentially binds” (usedinterchangeably herein) to an antibody or a polypeptide is a term wellunderstood in the art, and methods to determine such specific orpreferential binding are also well known in the art. A molecule is saidto exhibit “specific binding” or “preferential binding” if it reacts orassociates more frequently, more rapidly, with greater duration and/orwith greater affinity with a particular cell or substance than it doeswith alternative cells or substances. An antibody “specifically binds”or “preferentially binds” to a target if it binds with greater affinity,avidity, more readily, and/or with greater duration than it binds toother substances. For example, an antibody that specifically orpreferentially binds to a IL-1β epitope is an antibody that binds oneIL-1β epitope with greater affinity, avidity, more readily, and/or withgreater duration than it binds to other IL-1β epitopes or non-IL-1βepitopes. It is also understood by reading this definition that, forexample, an antibody (or moiety or epitope) that specifically orpreferentially binds to a first target may or may not specifically orpreferentially bind to a second target. As such, “specific binding” or“preferential binding” does not necessarily require (although it caninclude) exclusive binding. Generally, but not necessarily, reference tobinding means preferential binding.

Immunological binding generally refers to the non-covalent interactionsof the type which occur between an immunoglobulin molecule and anantigen for which the immunoglobulin is specific, for example by way ofillustration and not limitation, as a result of electrostatic, ionic,hydrophilic and/or hydrophobic attractions or repulsion, steric forces,hydrogen bonding, van der Waals forces, and other interactions. Thestrength, or affinity of immunological binding interactions can beexpressed in terms of the dissociation constant (K_(d)) of theinteraction, wherein a smaller K_(d) represents a greater affinity.Immunological binding properties of selected polypeptides can bequantified using methods well known in the art. One such method entailsmeasuring the rates of antigen-binding site/antigen complex formationand dissociation, wherein those rates depend on the concentrations ofthe complex partners, the affinity of the interaction, and on geometricparameters that equally influence the rate in both directions. Thus,both the “on rate constant” (K_(on)) and the “off rate constant”(K_(off)) can be determined by calculation of the concentrations and theactual rates of association and dissociation. The ratio ofK_(off)/K_(on) enables cancellation of all parameters not related toaffinity, and is thus equal to the dissociation constant K_(d). See,generally, Davies et al. (1990) Annual Rev. Biochem. 59:439-473.

In certain embodiments, the anti-IL-1β antibodies described herein havean affinity of about 100, 150, 155, 160, 170, 175, 180, 185, 190, 191,192, 193, 194, 195, 196, 197, 198 or 199 picomolar, and in someembodiments, the antibodies may have even higher affinity for IL-1β.

The term “immunologically active”, with reference to an epitope being or“remaining immunologically active”, refers to the ability of an antibody(e.g., anti-IL-1β antibody) to bind to the epitope under differentconditions, for example, after the epitope has been subjected toreducing and denaturing conditions.

An antibody or antigen-binding fragment thereof according to certainpreferred embodiments of the present application may be one thatcompetes for binding to IL-1β with any antibody described herein whichboth (i) specifically binds to the antigen and (ii) comprises a VHand/or VL domain disclosed herein, or comprises a VH CDR3 disclosedherein, or a variant of any of these. Competition between antibodies maybe assayed easily in vitro, for example using ELISA and/or by tagging aspecific reporter molecule to one antibody which can be detected in thepresence of other untagged antibodies, to enable identification ofspecific antibodies which bind the same epitope or an overlappingepitope. Thus, there is provided herein a specific antibody orantigen-binding fragment thereof, comprising a human antibodyantigen-binding site which competes with an antibody described hereinthat binds to IL-1β.

In this regard, as used herein, the terms “competes with”, “inhibitsbinding” and “blocks binding” (e.g., referring to inhibition/blocking ofbinding of IL-1β to its receptor or referring to inhibition/blocking ofbinding of an anti-IL-1β antibody to IL-1β) are used interchangeably andencompass both partial and complete inhibition/blocking. Theinhibition/blocking of IL-1β to its receptor preferably reduces oralters the normal level or type of cell signaling that occurs when IL-1βbinds to its receptor without inhibition or blocking. Inhibition andblocking are also intended to include any measurable decrease in thebinding of IL-1β to its receptor when in contact with an anti-IL-1βantibody as disclosed herein as compared to the ligand not in contactwith an anti-IL-1β antibody, e.g., the blocking of the receptor to IL-1βby at least about 10%, 20%, 30%, 40%, 50%, 60%, 65%, 70%, 75%, 80%, 85%,90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%.

The constant regions of immunoglobulins show less sequence diversitythan the variable regions, and are responsible for binding a number ofnatural proteins to elicit important biochemical events. In humans thereare five different classes of antibodies including IgA (which includessubclasses IgA1 and IgA2), IgD, IgE, IgG (which includes subclassesIgG1, IgG2, IgG3, and IgG4), and IgM. The distinguishing featuresbetween these antibody classes are their constant regions, althoughsubtler differences may exist in the V region.

The Fc region of an antibody interacts with a number of Fc receptors andligands, imparting an array of important functional capabilitiesreferred to as effector functions. For IgG the Fc region comprises Igdomains CH2 and CH3 and the N-terminal hinge leading into CH2. Animportant family of Fc receptors for the IgG class are the Fc gammareceptors (FcγRs). These receptors mediate communication betweenantibodies and the cellular arm of the immune system (Raghavan et al.,1996, Annu Rev Cell Dev Biol 12:181-220; Ravetch et al., 2001, Annu RevImmunol 19:275-290). In humans this protein family includes FcγRI(CD64), including isoforms FcγRIa, FcγRIb, and FcγRIc; FcγRII (CD32),including isoforms FcγRIIa (including allotypes H131 and R131), FcγRIIb(including FcγRIIb-1 and FcγRIIb-2), and FcγRIIc; and FcγRIII (CD16),including isoforms FcγRIIIa (including allotypes V158 and F158) andFcγRIIIb (including allotypes FcγRIIIb-NA1 and FcγRIIIb-NA2) (Jefferiset al., 2002, Immunol Lett 82:57-65). These receptors typically have anextracellular domain that mediates binding to Fc, a membrane spanningregion, and an intracellular domain that may mediate some signalingevent within the cell. These receptors are expressed in a variety ofimmune cells including monocytes, macrophages, neutrophils, dendriticcells, eosinophils, mast cells, platelets, B cells, large granularlymphocytes, Langerhans' cells, natural killer (NK) cells, and T cells.Formation of the Fc/FcγR complex recruits these effector cells to sitesof bound antigen, typically resulting in signaling events within thecells and important subsequent immune responses such as release ofinflammation mediators, B cell activation, endocytosis, phagocytosis,and cytotoxic attack.

The ability to mediate cytotoxic and phagocytic effector functions is apotential mechanism by which antibodies destroy targeted cells. Thecell-mediated reaction wherein nonspecific cytotoxic cells that expressFcγRs recognize bound antibody on a target cell and subsequently causelysis of the target cell is referred to as antibody dependentcell-mediated cytotoxicity (ADCC) (Raghavan et al., 1996, Annu Rev CellDev Biol 12:181-220; Ghetie et al., 2000, Annu Rev Immunol 18:739-766;Ravetch et al., 2001, Annu Rev Immunol 19:275-290). The cell-mediatedreaction wherein nonspecific cytotoxic cells that express FcγRsrecognize bound antibody on a target cell and subsequently causephagocytosis of the target cell is referred to as antibody dependentcell-mediated phagocytosis (ADCP). All FcγRs bind the same region on Fc,at the N-terminal end of the Cg2 (CH2) domain and the preceding hinge.This interaction is well characterized structurally (Sondermann et al.,2001, J Mol Biol 309:737-749), and several structures of the human Fcbound to the extracellular domain of human FcγRIIIb have been solved(pdb accession code 1E4K) (Sondermann et al., 2000, Nature 406:267-273.)(pdb accession codes 1IIS and 1IIX) (Radaev et al., 2001, J Biol Chem276:16469-16477.)

The different IgG subclasses have different affinities for the FcγRs,with IgG1 and IgG3 typically binding substantially better to thereceptors than IgG2 and IgG4 (Jefferis et al., 2002, Immunol Lett82:57-65). All FcγRs bind the same region on IgG Fc, yet with differentaffinities: the high affinity binder FcγRI has a Kd for IgG1 of 10⁻⁸M⁻¹, whereas the low affinity receptors FcγRII and FcγRII generally bindat 10⁻⁶ and 10⁻⁶ respectively. The extracellular domains of FcγRIIIa andFcγRIIIb are 96% identical, however FcγRIIIb does not have aintracellular signaling domain. Furthermore, whereas FcγRI, FcγRIIa/c,and FcγRIIIa are positive regulators of immune complex-triggeredactivation, characterized by having an intracellular domain that has animmunoreceptor tyrosine-based activation motif (ITAM), FcγRIIb has animmunoreceptor tyrosine-based inhibition motif (ITIM) and is thereforeinhibitory. Thus the former are referred to as activation receptors, andFcγRIIb is referred to as an inhibitory receptor. The receptors alsodiffer in expression pattern and levels on different immune cells. Yetanother level of complexity is the existence of a number of FcγRpolymorphisms in the human proteome. A particularly relevantpolymorphism with clinical significance is V158/F158 FcγRIIIa. HumanIgG1 binds with greater affinity to the V158 allotype than to the F158allotype. This difference in affinity, and presumably its effect on ADCCand/or ADCP, has been shown to be a significant determinant of theefficacy of the anti-CD20 antibody rituximab (Rituxan®, a registeredtrademark of DEC Pharmaceuticals Corporation). Patients with the V158allotype respond favorably to rituximab treatment; however, patientswith the lower affinity F158 allotype respond poorly (Cartron et al.,2002, Blood 99:754-758). Approximately 10-20% of humans are V158N158homozygous, 45% are V158/F158 heterozygous, and 35-45% of humans areF158/F158 homozygous (Lehrnbecher et al., 1999, Blood 94:4220-4232;Cartron et al., 2002, Blood 99:754-758). Thus 80-90% of humans are poorresponders, that is they have at least one allele of the F158 FcγRIIIa.

The Fc region is also involved in activation of the complement cascade.In the classical complement pathway, C1 binds with its C1q subunits toFc fragments of IgG or IgM, which has formed a complex with antigen(s).In certain embodiments of the invention, modifications to the Fc regioncomprise modifications that alter (either enhance or decrease) theability of an IL-1β-specific antibody as described herein to activatethe complement system (see e.g., U.S. Pat. No. 7,740,847). To assesscomplement activation, a complement-dependent cytotoxicity (CDC) assaymay be performed (See, e.g., Gazzano-Santoro et al., J. Immunol.Methods, 202:163 (1996)).

Thus in certain embodiments, the present invention provides anti-IL-1βantibodies having a modified Fc region with altered functionalproperties, such as reduced or enhanced CDC, ADCC, or ADCP activity, orenhanced binding affinity for a specific FcγR or increased serumhalf-life. Other modified Fc regions contemplated herein are described,for example, in issued U.S. Pat. Nos. 7,317,091; 7,657,380; 7,662,925;6,538,124; 6,528,624; 7,297,775; 7,364,731; Published U.S. ApplicationsUS2009092599; US20080131435; US20080138344; and published InternationalApplications WO2006/105338; WO2004/063351; WO2006/088494; WO2007/024249.

Thus, in certain embodiments, antibody variable domains with the desiredbinding specificities are fused to immunoglobulin constant domainsequences. In certain embodiments, the fusion is with an Ig heavy chainconstant domain, comprising at least part of the hinge, C_(H)2, andC_(H)3 regions. It is preferred to have the first heavy-chain constantregion (C_(H)1) containing the site necessary for light chain bonding,present in at least one of the fusions. DNAs encoding the immunoglobulinheavy chain fusions and, if desired, the immunoglobulin light chain, areinserted into separate expression vectors, and are co-transfected into asuitable host cell. This provides for greater flexibility in adjustingthe mutual proportions of the three polypeptide fragments in embodimentswhen unequal ratios of the three polypeptide chains used in theconstruction provide the optimum yield of the desired bispecificantibody. It is, however, possible to insert the coding sequences fortwo or all three polypeptide chains into a single expression vector whenthe expression of at least two polypeptide chains in equal ratiosresults in high yields or when the ratios have no significant affect onthe yield of the desired chain combination.

Antibodies of the present invention (and antigen-binding fragments andvariants thereof) may also be modified to include an epitope tag orlabel, e.g., for use in purification or diagnostic applications. Thereare many linking groups known in the art for making antibody conjugates,including, for example, those disclosed in U.S. Pat. No. 5,208,020 or EPPatent 0 425 235 B1, and Chari et al., Cancer Research 52: 127-131(1992). The linking groups include disufide groups, thioether groups,acid labile groups, photolabile groups, peptidase labile groups, oresterase labile groups, as disclosed in the above-identified patents,disulfide and thioether groups being preferred.

In another contemplated embodiment, a IL-1β-specific antibody asdescribed herein may be conjugated or operably linked to anothertherapeutic compound, referred to herein as a conjugate. The conjugatemay be a cytotoxic agent, a chemotherapeutic agent, a cytokine, ananti-angiogenic agent, a tyrosine kinase inhibitor, a toxin, aradioisotope, or other therapeutically active agent. Chemotherapeuticagents, cytokines, anti-angiogenic agents, tyrosine kinase inhibitors,and other therapeutic agents have been described above, and all of theseaforemention therapeutic agents may find use as antibody conjugates.

In an alternate embodiment, the antibody is conjugated or operablylinked to a toxin, including but not limited to small molecule toxinsand enzymatically active toxins of bacterial, fungal, plant or animalorigin, including fragments and/or variants thereof. Small moleculetoxins include but are not limited to saporin (Kuroda K, et al., TheProstate 70:1286-1294 (2010); Lip, W L. et al., 2007 MolecularPharmaceutics 4:241-251; Quadros E V., et al., 2010 Mol Cancer Ther;9(11); 3033-40; Polito L., et al. British Journal of Haematology, 147,710-718), calicheamicin, maytansine (U.S. Pat. No. 5,208,020),trichothene, and CC1065. Toxins include but are not limited to RNase,gelonin, enediynes, ricin, abrin, diptheria toxin, cholera toxin,gelonin, Pseudomonas exotoxin (PE40), Shigella toxin, Clostridiumperfringens toxin, and pokeweed antiviral protein.

In one embodiment, an antibody or antigen-binding fragment thereof ofthe disclosure is conjugated to one or more maytansinoid molecules.Maytansinoids are mitototic inhibitors that act by inhibiting tubulinpolymerization. Maytansine was first isolated from the east Africanshrub Maytenus serrata (U.S. Pat. No. 3,896,111). Subsequently, it wasdiscovered that certain microbes also produce maytansinoids, such asmaytansinol and C-3 maytansinol esters (U.S. Pat. No. 4,151,042).Synthetic maytansinol and derivatives and analogues thereof aredisclosed, for example, in U.S. Pat. Nos. 4,137,230; 4,248,870;4,256,746; 4,260,608; 4,265,814; 4,294,757; 4,307,016; 4,308,268;4,308,269; 4,309,428; 4,313,946; 4,315,929; 4,317,821; 4,322,348;4,331,598; 4,361,650; 4,364,866; 4,424,219; 4,450,254; 4,362,663; and4,371,533. Immunoconjugates containing maytansinoids and theirtherapeutic use are disclosed, for example, in U.S. Pat. Nos. 5,208,020,5,416,064 and European Patent EP 0 425 235 B1. Liu et al., Proc. Natl.Acad. Sci. USA 93:8618-8623 (1996) described immunoconjugates comprisinga maytansinoid designated DM1 linked to the monoclonal antibody C242directed against human colorectal cancer. The conjugate was found to behighly cytotoxic towards cultured colon cancer cells, and showedantitumor activity in an in vivo tumor growth assay.

Antibody-maytansinoid conjugates are prepared by chemically linking anantibody to a maytansinoid molecule without significantly diminishingthe biological activity of either the antibody or the maytansinoidmolecule. An average of 3-4 maytansinoid molecules conjugated perantibody molecule has shown efficacy in enhancing cytotoxicity of targetcells without negatively affecting the function or solubility of theantibody, although even one molecule of toxin/antibody would be expectedto enhance cytotoxicity over the use of naked antibody. Maytansinoidsare well known in the art and can be synthesized by known techniques orisolated from natural sources. Suitable maytansinoids are disclosed, forexample, in U.S. Pat. No. 5,208,020 and in the other patents andnonpatent publications referred to hereinabove. Preferred maytansinoidsare maytansinol and maytansinol analogues modified in the aromatic ringor at other positions of the maytansinol molecule, such as variousmaytansinol esters.

Another conjugate of interest comprises an antibody conjugated to one ormore calicheamicin molecules. The calicheamicin family of antibioticsare capable of producing double-stranded DNA breaks at sub-picomolarconcentrations. Structural analogues of calicheamicin that may also beused (Hinman et al., 1993, Cancer Research 53:3336-3342; Lode et al.,1998, Cancer Research 58:2925-2928) (U.S. Pat. No. 5,714,586; U.S. Pat.No. 5,712,374; U.S. Pat. No. 5,264,586; U.S. Pat. No. 5,773,001).Dolastatin 10 analogs such as auristatin E (AE) and monomethylauristatinE (MMAE) may find use as conjugates for the presently disclosedantibodies, or variants thereof (Doronina et al., 2003, Nat Biotechnol21(7):778-84; Francisco et al., 2003 Blood 102(4):1458-65). Usefulenzymatically active toxins include but are not limited to diphtheria Achain, nonbinding active fragments of diphtheria toxin, exotoxin A chain(from Pseudomonas aeruginosa), ricin A chain, abrin A chain, modeccin Achain, alpha-sarcin, Aleurites fordii proteins, dianthin proteins,Phytolaca americana proteins (PAPI, PAPII, and PAP-S), momordicacharantia inhibitor, curcin, crotin, sapaonaria officinalis inhibitor,gelonin, mitogellin, restrictocin, phenomycin, enomycin and thetricothecenes. See, for example, PCT WO 93/21232. The present disclosurefurther contemplates embodiments in which a conjugate or fusion isformed between an IL-1β-specific antibody as described herein and acompound with nucleolytic activity, for example a ribonuclease or DNAendonuclease such as a deoxyribonuclease (DNase).

In an alternate embodiment, a herein-disclosed antibody may beconjugated or operably linked to a radioisotope to form aradioconjugate. A variety of radioactive isotopes are available for theproduction of radioconjugate antibodies. Examples include, but are notlimited to ⁹⁰Y, ¹²³I, ¹²⁵I, ¹³¹I, ¹⁸⁶Re, ¹⁸⁸Re, ²¹¹At, and ²¹²Bi.

Antibodies described herein may in certain other embodiments beconjugated to a therapeutic moiety such as a cytotoxin (e.g., acytostatic or cytocidal agent), a therapeutic agent or a radioactiveelement (e.g., alpha-emitters, gamma-emitters, etc.). Cytotoxins orcytotoxic agents include any agent that is detrimental to cells.Examples include paclitaxel/paclitaxol, cytochalasin B, gramicidin D,ethidium bromide, emetine, mitomycin, etoposide, tenoposide,vincristine, vinblastine, colchicin, doxorubicin, daunorubicin,dihydroxy anthracin dione, mitoxantrone, mithramycin, actinomycin D,1-dehydrotestosterone, glucocorticoids, procaine, tetracaine, lidocaine,propranolol, and puromycin and analogs or homologs thereof. Onepreferred exemplary cytotoxin is saporin (available from AdvancedTargeting Systems, San Diego, Calif.). Therapeutic agents include, butare not limited to, antimetabolites (e.g., methotrexate,6-mercaptopurine, 6-thioguanine, cytarabine, 5-fluorouracildecarbazine), alkylating agents (e.g., mechlorethamine, thioepachlorambucil, melphalan, carmustine (BSNU) and lomustine (CCNU),cyclothosphamide, busulfan, dibromomannitol, streptozotocin, mitomycinC, and cisdichlorodiamine platinum (II) (DDP) cisplatin), anthracyclines(e.g., daunorubicin (formerly daunomycin) and doxorubicin), antibiotics(e.g., dactinomycin (formerly actinomycin), bleomycin, mithramycin, andanthramycin (AMC), and anti-mitotic agents (e.g., vincristine andvinblastine).

Moreover, a IL-1β-specific antibody (including a functional fragmentthereof as provided herein such as an antigen-binding fragment) may incertain embodiments be conjugated to therapeutic moieties such as aradioactive materials or macrocyclic chelators useful for conjugatingradiometal ions. In certain embodiments, the macrocyclic chelator is1,4,7,10-tetraazacyclododecane-N,N′,N″,N′″-tetraacetic acid (DOTA) whichcan be attached to the antibody via a linker molecule. Such linkermolecules are commonly known in the art and described in Denardo et al.,1998, Clin Cancer Res. 4:2483-90; Peterson et al., 1999, Bioconjug.Chem. 10:553; and Zimmerman et al., 1999, Nucl. Med. Biol. 26:943-50.

In yet another embodiment, an antibody may be conjugated to a “receptor”(such as streptavidin) for utilization in tumor pretargeting wherein theantibody-receptor conjugate is administered to the patient, followed byremoval of unbound conjugate from the circulation using a clearing agentand then administration of a “ligand” (e.g. avidin) which is conjugatedto a cytotoxic agent (e.g. a radionucleotide). In an alternateembodiment, the antibody is conjugated or operably linked to an enzymein order to employ Antibody Dependent Enzyme Mediated Prodrug Therapy(ADEPT). ADEPT may be used by conjugating or operably linking theantibody to a prodrug-activating enzyme that converts a prodrug (e.g. apeptidyl chemotherapeutic agent, see PCT WO 81/01145) to an activeanti-cancer drug. See, for example, PCT WO 88/07378 and U.S. Pat. No.4,975,278. The enzyme component of the immunoconjugate useful for ADEPTincludes any enzyme capable of acting on a prodrug in such a way so asto convert it into its more active, cytotoxic form. Enzymes that areuseful in the method of these and related embodiments include but arenot limited to alkaline phosphatase useful for convertingphosphate-containing prodrugs into free drugs; arylsulfatase useful forconverting sulfate-containing prodrugs into free drugs; cytosinedeaminase useful for converting non-toxic 5-fluorocytosine into theanti-cancer drug, 5-fluorouracil; proteases, such as serratia protease,thermolysin, subtilisin, carboxypeptidases and cathepsins (such ascathepsins B and L), that are useful for converting peptide-containingprodrugs into free drugs; D-alanylcarboxypeptidases, useful forconverting prodrugs that contain D-amino acid substituents;carbohydrate-cleaving enzymes such as -galactosidase and neuramimidaseuseful for converting glycosylated prodrugs into free drugs;beta-lactamase useful for converting drugs derivatized with -lactamsinto free drugs; and penicillin amidases, such as penicillin V amidaseor penicillin G amidase, useful for converting drugs derivatized attheir amine nitrogens with phenoxyacetyl or phenylacetyl groups,respectively, into free drugs. Alternatively, antibodies with enzymaticactivity, also known in the art as “abzymes”, may be used to convertprodrugs into free active drugs (see, for example, Massey, 1987, Nature328: 457-458). Antibody-abzyme conjugates can be prepared for deliveryof the abzyme to a tumor cell population.

Immunoconjugates may be made using a variety of bifunctional proteincoupling agents such as N-succinimidyl-3-(2-pyridyldithio)propionate(SPDP), succinimidyl-4-(N-maleimidomethyl)cyclohexane-1-carboxylate,iminothiolane (IT), bifunctional derivatives of imidoesters (such asdimethyl adipimidate HCL), active esters (such as disuccinimidylsuberate), aldehydes (such as glutareldehyde), bis-azido compounds (suchas bis(p-azidobenzoyl)hexanediamine), bis-diazonium derivatives (such asbis-(p-diazoniumbenzoyl)-ethylenediamine), diisocyanates (such astoluene 2,6-diisocyanate), and bis-active fluorine compounds (such as1,5-difluoro-2,4-dinitrobenzene). Particular coupling agents includeN-succinimidyl-3-(2-pyridyldithio)propionate (SPDP) (Carlsson et al.,Biochem. J. 173:723-737 [1978]) andN-succinimidyl-4-(2-pyridylthio)pentanoate (SPP) to provide for adisulfide linkage. The linker may be a “cleavable linker” facilitatingrelease of one or more cleavable components. For example, an acid-labilelinker may be used (Cancer Research 52: 127-131 (1992); U.S. Pat. No.5,208,020).

Other modifications of the antibodies (and polypeptides) of theinvention are also contemplated herein. For example, the antibody may belinked to one of a variety of nonproteinaceous polymers, e.g.,polyethylene glycol, polypropylene glycol, polyoxyalkylenes, orcopolymers of polyethylene glycol and polypropylene glycol. The antibodyalso may be entrapped in microcapsules prepared, for example, bycoacervation techniques or by interfacial polymerization (for example,hydroxymethylcellulose or gelatin-microcapsules andpoly(methylmethacylate)microcapsules, respectively), in colloidal drugdelivery systems (for example, liposomes, albumin microspheres,microemulsions, nano-particles and nanocapsules), or in macroemulsions.Such techniques are disclosed in Remington's Pharmaceutical Sciences,16th edition, Oslo, A., Ed., (1980).

“Carriers” as used herein include pharmaceutically acceptable carriers,excipients, or stabilizers that are nontoxic to the cell or mammal beingexposed thereto at the dosages and concentrations employed. Often thephysiologically acceptable carrier is an aqueous pH buffered solution.Examples of physiologically acceptable carriers include buffers such asphosphate, citrate, and other organic acids; antioxidants includingascorbic acid; low molecular weight (less than about 10 residues)polypeptide; proteins, such as serum albumin, gelatin, orimmunoglobulins; hydrophilic polymers such as polyvinylpyrrolidone;amino acids such as glycine, glutamine, asparagine, arginine or lysine;monosaccharides, disaccharides, and other carbohydrates includingglucose, mannose, or dextrins; chelating agents such as EDTA; sugaralcohols such as mannitol or sorbitol; salt-forming counterions such assodium; and/or nonionic surfactants such as polysorbate 20 (TWEEN™)polyethylene glycol (PEG), and poloxamers (PLURONICS™), and the like.

The desired functional properties of anti-IL-1β antibodies may beassessed using a variety of methods known to the skilled person such asaffinity/binding assays (for example, surface plasmon resonance,competitive inhibition assays); inflammatory or autoimmune responseinhibition using in vitro or in vivo models; cytotoxicity assays, cellviability assays, cell proliferation or differentiation assays inresponse to IL-1β. In certain embodiments, the antibodies herein areassessed by measuring, e.g., IL-1β-induced TF-1 cell proliferation ornuclear translocation of NF-kB. Other assays may test the ability ofantibodies described herein to block normal receptor/IL-1β-mediatedresponses, such as cell proliferation, differentiation, apoptosis bysignaling through NF-kB and c-Jun pathways, release of proinflammatorycytokines such as TNF and IL-6, and Th17 bias in cellular adaptiveresponses. The antibodies described herein may also be tested foreffects on IL-1β receptor internalisation, in vitro and in vivoefficacy, etc. Such assays may be performed using well-establishedprotocols known to the skilled person (see e.g., Current Protocols inMolecular Biology (Greene Publ. Assoc. Inc. & John Wiley & Sons, Inc.,NY, N.Y.); Current Protocols in Immunology (Edited by: John E. Coligan,Ada M. Kruisbeek, David H. Margulies, Ethan M. Shevach, Warren Strober2001 John Wiley & Sons, NY, N.Y.); or commercially available kits.

The present invention further provides in certain embodiments anisolated nucleic acid encoding an antibody or antigen-binding fragmentthereof as described herein, for instance, a nucleic acid which codesfor a CDR or VH or VL domain as described herein. Nucleic acids includeDNA and RNA. These and related embodiments may include polynucleotidesencoding antibodies that bind IL-1β as described herein. The term“isolated polynucleotide” as used herein shall mean a polynucleotide ofgenomic, cDNA, or synthetic origin or some combination thereof, which byvirtue of its origin the isolated polynucleotide (1) is not associatedwith all or a portion of a polynucleotide in which the isolatedpolynucleotide is found in nature, (2) is linked to a polynucleotide towhich it is not linked in nature, or (3) does not occur in nature aspart of a larger sequence.

The term “operably linked” means that the components to which the termis applied are in a relationship that allows them to carry out theirinherent functions under suitable conditions. For example, atranscription control sequence “operably linked” to a protein codingsequence is ligated thereto so that expression of the protein codingsequence is achieved under conditions compatible with thetranscriptional activity of the control sequences.

The term “control sequence” as used herein refers to polynucleotidesequences that can affect expression, processing or intracellularlocalization of coding sequences to which they are ligated or operablylinked. The nature of such control sequences may depend upon the hostorganism. In particular embodiments, transcription control sequences forprokaryotes may include a promoter, ribosomal binding site, andtranscription termination sequence. In other particular embodiments,transcription control sequences for eukaryotes may include promoterscomprising one or a plurality of recognition sites for transcriptionfactors, transcription enhancer sequences, transcription terminationsequences and polyadenylation sequences. In certain embodiments,“control sequences” can include leader sequences and/or fusion partnersequences.

The term “polynucleotide” as referred to herein means single-stranded ordouble-stranded nucleic acid polymers. In certain embodiments, thenucleotides comprising the polynucleotide can be ribonucleotides ordeoxyribonucleotides or a modified form of either type of nucleotide.Said modifications include base modifications such as bromouridine,ribose modifications such as arabinoside and 2′,3′-dideoxyribose andinternucleotide linkage modifications such as phosphorothioate,phosphorodithioate, phosphoroselenoate, phosphorodiselenoate,phosphoroanilothioate, phoshoraniladate and phosphoroamidate. The term“polynucleotide” specifically includes single and double stranded formsof DNA.

The term “naturally occurring nucleotides” includes deoxyribonucleotidesand ribonucleotides. The term “modified nucleotides” includesnucleotides with modified or substituted sugar groups and the like. Theterm “oligonucleotide linkages” includes oligonucleotide linkages suchas phosphorothioate, phosphorodithioate, phosphoroselenoate,phosphorodiselenoate, phosphoroanilothioate, phoshoraniladate,phosphoroamidate, and the like. See, e.g., LaPlanche et al., 1986, Nucl.Acids Res., 14:9081; Stec et al., 1984, J. Am. Chem. Soc., 106:6077;Stein et al., 1988, Nucl. Acids Res., 16:3209; Zon et al., 1991,Anti-Cancer Drug Design, 6:539; Zon et al., 1991, OLIGONUCLEOTIDES ANDANALOGUES: A PRACTICAL APPROACH, pp. 87-108 (F. Eckstein, Ed.), OxfordUniversity Press, Oxford England; Stec et al., U.S. Pat. No. 5,151,510;Uhlmann and Peyman, 1990, Chemical Reviews, 90:543, the disclosures ofwhich are hereby incorporated by reference for any purpose. Anoligonucleotide can include a detectable label to enable detection ofthe oligonucleotide or hybridization thereof.

The term “vector” is used to refer to any molecule (e.g., nucleic acid,plasmid, or virus) used to transfer coding information to a host cell.The term “expression vector” refers to a vector that is suitable fortransformation of a host cell and contains nucleic acid sequences thatdirect and/or control expression of inserted heterologous nucleic acidsequences. Expression includes, but is not limited to, processes such astranscription, translation, and RNA splicing, if introns are present.

As will be understood by those skilled in the art, polynucleotides mayinclude genomic sequences, extra-genomic and plasmid-encoded sequencesand smaller engineered gene segments that express, or may be adapted toexpress, proteins, polypeptides, peptides and the like. Such segmentsmay be naturally isolated, or modified synthetically by the skilledperson.

As will be also recognized by the skilled artisan, polynucleotides maybe single-stranded (coding or antisense) or double-stranded, and may beDNA (genomic, cDNA or synthetic) or RNA molecules. RNA molecules mayinclude HnRNA molecules, which contain introns and correspond to a DNAmolecule in a one-to-one manner, and mRNA molecules, which do notcontain introns. Additional coding or non-coding sequences may, but neednot, be present within a polynucleotide according to the presentdisclosure, and a polynucleotide may, but need not, be linked to othermolecules and/or support materials. Polynucleotides may comprise anative sequence or may comprise a sequence that encodes a variant orderivative of such a sequence.

Therefore, according to these and related embodiments, the presentdisclosure also provides polynucleotides encoding the anti-IL-1βantibodies described herein. In certain embodiments, polynucleotides areprovided that comprise some or all of a polynucleotide sequence encodingan antibody as described herein and complements of such polynucleotides.

In other related embodiments, polynucleotide variants may havesubstantial identity to a polynucleotide sequence encoding an anti-IL-1βantibody described herein. For example, a polynucleotide may be apolynucleotide comprising at least 70% sequence identity, preferably atleast 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, or 99% or higher, sequenceidentity compared to a reference polynucleotide sequence such as asequence encoding an antibody described herein, using the methodsdescribed herein, (e.g., BLAST analysis using standard parameters, asdescribed below). One skilled in this art will recognize that thesevalues can be appropriately adjusted to determine corresponding identityof proteins encoded by two nucleotide sequences by taking into accountcodon degeneracy, amino acid similarity, reading frame positioning andthe like.

Typically, polynucleotide variants will contain one or moresubstitutions, additions, deletions and/or insertions, preferably suchthat the binding affinity of the antibody encoded by the variantpolynucleotide is not substantially diminished relative to an antibodyencoded by a polynucleotide sequence specifically set forth herein.

In certain other related embodiments, polynucleotide fragments maycomprise or consist essentially of various lengths of contiguousstretches of sequence identical to or complementary to a sequenceencoding an antibody as described herein. For example, polynucleotidesare provided that comprise or consist essentially of at least about 5,6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24,25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 45, 50,55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 110, 120, 130, 140, 150, 200,300, 400, 500 or 1000 or more contiguous nucleotides of a sequences theencodes an antibody, or antigen-binding fragment thereof, disclosedherein as well as all intermediate lengths there between. It will bereadily understood that “intermediate lengths”, in this context, meansany length between the quoted values, such as 50, 51, 52, 53, etc.; 100,101, 102, 103, etc.; 150, 151, 152, 153, etc.; including all integersthrough 200-500; 500-1,000, and the like. A polynucleotide sequence asdescribed here may be extended at one or both ends by additionalnucleotides not found in the native sequence. This additional sequencemay consist of 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16,17, 18, 19, or 20 nucleotides at either end of a polynucleotide encodingan antibody described herein or at both ends of a polynucleotideencoding an antibody described herein.

In another embodiment, polynucleotides are provided that are capable ofhybridizing under moderate to high stringency conditions to apolynucleotide sequence encoding an antibody, or antigen-bindingfragment thereof, provided herein, or a fragment thereof, or acomplementary sequence thereof. Hybridization techniques are well knownin the art of molecular biology. For purposes of illustration, suitablemoderately stringent conditions for testing the hybridization of apolynucleotide as provided herein with other polynucleotides includeprewashing in a solution of 5×SSC, 0.5% SDS, 1.0 mM EDTA (pH 8.0);hybridizing at 50° C.-60° C., 5×SSC, overnight; followed by washingtwice at 65° C. for 20 minutes with each of 2×, 0.5× and 0.2×SSCcontaining 0.1% SDS. One skilled in the art will understand that thestringency of hybridization can be readily manipulated, such as byaltering the salt content of the hybridization solution and/or thetemperature at which the hybridization is performed. For example, inanother embodiment, suitable highly stringent hybridization conditionsinclude those described above, with the exception that the temperatureof hybridization is increased, e.g., to 60° C.-65° C. or 65° C.-70° C.

In certain embodiments, the polynucleotides described above, e.g.,polynucleotide variants, fragments and hybridizing sequences, encodeantibodies that bind IL-1β, or antigen-binding fragments thereof. Inother embodiments, such polynucleotides encode antibodies orantigen-binding fragments, or CDRs thereof, that bind to IL-1β at leastabout 50%, at least about 70%, and in certain embodiments, at leastabout 90% as well as an antibody sequence specifically set forth herein.In further embodiments, such polynucleotides encode antibodies orantigen-binding fragments, or CDRs thereof, that bind to IL-1β withgreater affinity than the antibodies set forth herein, for example, thatbind quantitatively at least about 105%, 106%, 107%, 108%, 109%, or 110%as well as an antibody sequence specifically set forth herein.

As described elsewhere herein, determination of the three-dimensionalstructures of representative polypeptides (e.g., variant IL-1β-specificantibodies as provided herein, for instance, an antibody protein havingan antigen-binding fragment as provided herein) may be made throughroutine methodologies such that substitution, addition, deletion orinsertion of one or more amino acids with selected natural ornon-natural amino acids can be virtually modeled for purposes ofdetermining whether a so derived structural variant retains thespace-filling properties of presently disclosed species. A variety ofcomputer programs are known to the skilled artisan for determiningappropriate amino acid substitutions (or appropriate polynucleotidesencoding the amino acid sequence) within an antibody such that, forexample, affinity is maintained or better affinity is achieved.

The polynucleotides described herein, or fragments thereof, regardlessof the length of the coding sequence itself, may be combined with otherDNA sequences, such as promoters, polyadenylation signals, additionalrestriction enzyme sites, multiple cloning sites, other coding segments,and the like, such that their overall length may vary considerably. Itis therefore contemplated that a nucleic acid fragment of almost anylength may be employed, with the total length preferably being limitedby the ease of preparation and use in the intended recombinant DNAprotocol. For example, illustrative polynucleotide segments with totallengths of about 10,000, about 5000, about 3000, about 2,000, about1,000, about 500, about 200, about 100, about 50 base pairs in length,and the like, (including all intermediate lengths) are contemplated tobe useful.

When comparing polynucleotide sequences, two sequences are said to be“identical” if the sequence of nucleotides in the two sequences is thesame when aligned for maximum correspondence, as described below.Comparisons between two sequences are typically performed by comparingthe sequences over a comparison window to identify and compare localregions of sequence similarity. A “comparison window” as used herein,refers to a segment of at least about 20 contiguous positions, usually30 to about 75, 40 to about 50, in which a sequence may be compared to areference sequence of the same number of contiguous positions after thetwo sequences are optimally aligned.

Optimal alignment of sequences for comparison may be conducted using theMegalign program in the Lasergene suite of bioinformatics software(DNASTAR, Inc., Madison, Wis.), using default parameters. This programembodies several alignment schemes described in the followingreferences: Dayhoff, M. O. (1978) A model of evolutionary change inproteins—Matrices for detecting distant relationships. In Dayhoff, M. O.(ed.) Atlas of Protein Sequence and Structure, National BiomedicalResearch Foundation, Washington D.C. Vol. 5, Suppl. 3, pp. 345-358; HeinJ., Unified Approach to Alignment and Phylogenes, pp. 626-645 (1990);Methods in Enzymology vol. 183, Academic Press, Inc., San Diego, Calif.;Higgins, D. G. and Sharp, P. M., CABIOS 5:151-153 (1989); Myers, E. W.and Muller W., CABIOS 4:11-17 (1988); Robinson, E. D., Comb. Theor11:105 (1971); Santou, N. Nes, M., Mol. Biol. Evol. 4:406-425 (1987);Sneath, P. H. A. and Sokal, R. R., Numerical Taxonomy—the Principles andPractice of Numerical Taxonomy, Freeman Press, San Francisco, Calif.(1973); Wilbur, W. J. and Lipman, D. J., Proc. Natl. Acad., Sci. USA80:726-730 (1983).

Alternatively, optimal alignment of sequences for comparison may beconducted by the local identity algorithm of Smith and Waterman, Add.APL. Math 2:482 (1981), by the identity alignment algorithm of Needlemanand Wunsch, J. Mol. Biol. 48:443 (1970), by the search for similaritymethods of Pearson and Lipman, Proc. Natl. Acad. Sci. USA 85: 2444(1988), by computerized implementations of these algorithms (GAP,BESTFIT, BLAST, FASTA, and TFASTA in the Wisconsin Genetics SoftwarePackage, Genetics Computer Group (GCG), 575 Science Dr., Madison, Wis.),or by inspection.

One preferred example of algorithms that are suitable for determiningpercent sequence identity and sequence similarity are the BLAST andBLAST 2.0 algorithms, which are described in Altschul et al., Nucl.Acids Res. 25:3389-3402 (1977), and Altschul et al., J. Mol. Biol.215:403-410 (1990), respectively. BLAST and BLAST 2.0 can be used, forexample with the parameters described herein, to determine percentsequence identity among two or more the polynucleotides. Software forperforming BLAST analyses is publicly available through the NationalCenter for Biotechnology Information. In one illustrative example,cumulative scores can be calculated using, for nucleotide sequences, theparameters M (reward score for a pair of matching residues; always >0)and N (penalty score for mismatching residues; always <0). Extension ofthe word hits in each direction are halted when: the cumulativealignment score falls off by the quantity X from its maximum achievedvalue; the cumulative score goes to zero or below, due to theaccumulation of one or more negative-scoring residue alignments; or theend of either sequence is reached. The BLAST algorithm parameters W, Tand X determine the sensitivity and speed of the alignment. The BLASTNprogram (for nucleotide sequences) uses as defaults a wordlength (W) of11, and expectation (E) of 10, and the BLOSUM62 scoring matrix (seeHenikoff and Henikoff, Proc. Natl. Acad. Sci. USA 89:10915 (1989))alignments, (B) of 50, expectation (E) of 10, M=5, N=−4 and a comparisonof both strands.

In certain embodiments, the “percentage of sequence identity” isdetermined by comparing two optimally aligned sequences over a window ofcomparison of at least 20 positions, wherein the portion of thepolynucleotide sequence in the comparison window may comprise additionsor deletions (i.e., gaps) of 20 percent or less, usually 5 to 15percent, or 10 to 12 percent, as compared to the reference sequences(which does not comprise additions or deletions) for optimal alignmentof the two sequences. The percentage is calculated by determining thenumber of positions at which the identical nucleic acid bases occurs inboth sequences to yield the number of matched positions, dividing thenumber of matched positions by the total number of positions in thereference sequence (i.e., the window size) and multiplying the resultsby 100 to yield the percentage of sequence identity.

It will be appreciated by those of ordinary skill in the art that, as aresult of the degeneracy of the genetic code, there are many nucleotidesequences that encode an antibody as described herein. Some of thesepolynucleotides bear minimal sequence identity to the nucleotidesequence of the native or original polynucleotide sequence that encodeantibodies that bind to IL-1β. Nonetheless, polynucleotides that varydue to differences in codon usage are expressly contemplated by thepresent disclosure. In certain embodiments, sequences that have beencodon-optimized for mammalian expression are specifically contemplated.

Therefore, in another embodiment of the invention, a mutagenesisapproach, such as site-specific mutagenesis, may be employed for thepreparation of variants and/or derivatives of the antibodies describedherein. By this approach, specific modifications in a polypeptidesequence can be made through mutagenesis of the underlyingpolynucleotides that encode them. These techniques provides astraightforward approach to prepare and test sequence variants, forexample, incorporating one or more of the foregoing considerations, byintroducing one or more nucleotide sequence changes into thepolynucleotide.

Site-specific mutagenesis allows the production of mutants through theuse of specific oligonucleotide sequences which encode the DNA sequenceof the desired mutation, as well as a sufficient number of adjacentnucleotides, to provide a primer sequence of sufficient size andsequence complexity to form a stable duplex on both sides of thedeletion junction being traversed. Mutations may be employed in aselected polynucleotide sequence to improve, alter, decrease, modify, orotherwise change the properties of the polynucleotide itself, and/oralter the properties, activity, composition, stability, or primarysequence of the encoded polypeptide.

In certain embodiments, the inventors contemplate the mutagenesis of thepolynucleotide sequences that encode an antibody disclosed herein, or anantigen-binding fragment thereof, to alter one or more properties of theencoded polypeptide, such as the binding affinity of the antibody or theantigen-binding fragment thereof, or the function of a particular Fcregion, or the affinity of the Fc region for a particular FcγR. Thetechniques of site-specific mutagenesis are well-known in the art, andare widely used to create variants of both polypeptides andpolynucleotides. For example, site-specific mutagenesis is often used toalter a specific portion of a DNA molecule. In such embodiments, aprimer comprising typically about 14 to about 25 nucleotides or so inlength is employed, with about 5 to about 10 residues on both sides ofthe junction of the sequence being altered.

As will be appreciated by those of skill in the art, site-specificmutagenesis techniques have often employed a phage vector that exists inboth a single stranded and double stranded form. Typical vectors usefulin site-directed mutagenesis include vectors such as the M13 phage.These phage are readily commercially-available and their use isgenerally well-known to those skilled in the art. Double-strandedplasmids are also routinely employed in site directed mutagenesis thateliminates the step of transferring the gene of interest from a plasmidto a phage.

In general, site-directed mutagenesis in accordance herewith isperformed by first obtaining a single-stranded vector or melting apartof two strands of a double-stranded vector that includes within itssequence a DNA sequence that encodes the desired peptide. Anoligonucleotide primer bearing the desired mutated sequence is prepared,generally synthetically. This primer is then annealed with thesingle-stranded vector, and subjected to DNA polymerizing enzymes suchas E. coli polymerase I Klenow fragment, in order to complete thesynthesis of the mutation-bearing strand. Thus, a heteroduplex is formedwherein one strand encodes the original non-mutated sequence and thesecond strand bears the desired mutation. This heteroduplex vector isthen used to transform appropriate cells, such as E. coli cells, andclones are selected which include recombinant vectors bearing themutated sequence arrangement.

The preparation of sequence variants of the selected peptide-encodingDNA segments using site-directed mutagenesis provides a means ofproducing potentially useful species and is not meant to be limiting asthere are other ways in which sequence variants of peptides and the DNAsequences encoding them may be obtained. For example, recombinantvectors encoding the desired peptide sequence may be treated withmutagenic agents, such as hydroxylamine, to obtain sequence variants.Specific details regarding these methods and protocols are found in theteachings of Maloy et al., 1994; Segal, 1976; Prokop and Bajpai, 1991;Kuby, 1994; and Maniatis et al., 1982, each incorporated herein byreference, for that purpose.

As used herein, the term “oligonucleotide directed mutagenesisprocedure” refers to template-dependent processes and vector-mediatedpropagation which result in an increase in the concentration of aspecific nucleic acid molecule relative to its initial concentration, orin an increase in the concentration of a detectable signal, such asamplification. As used herein, the term “oligonucleotide directedmutagenesis procedure” is intended to refer to a process that involvesthe template-dependent extension of a primer molecule. The term templatedependent process refers to nucleic acid synthesis of an RNA or a DNAmolecule wherein the sequence of the newly synthesized strand of nucleicacid is dictated by the well-known rules of complementary base pairing(see, for example, Watson, 1987). Typically, vector mediatedmethodologies involve the introduction of the nucleic acid fragment intoa DNA or RNA vector, the clonal amplification of the vector, and therecovery of the amplified nucleic acid fragment. Examples of suchmethodologies are provided by U.S. Pat. No. 4,237,224, specificallyincorporated herein by reference in its entirety.

In another approach for the production of polypeptide variants,recursive sequence recombination, as described in U.S. Pat. No.5,837,458, may be employed. In this approach, iterative cycles ofrecombination and screening or selection are performed to “evolve”individual polynucleotide variants having, for example, increasedbinding affinity. Certain embodiments also provide constructs in theform of plasmids, vectors, transcription or expression cassettes whichcomprise at least one polynucleotide as described herein.

In many embodiments, the nucleic acids encoding a subject monoclonalantibody are introduced directly into a host cell, and the cellincubated under conditions sufficient to induce expression of theencoded antibody. The antibodies of this disclosure are prepared usingstandard techniques well known to those of skill in the art incombination with the polypeptide and nucleic acid sequences providedherein. The polypeptide sequences may be used to determine appropriatenucleic acid sequences encoding the particular antibody disclosedthereby. The nucleic acid sequence may be optimized to reflectparticular codon “preferences” for various expression systems accordingto standard methods well known to those of skill in the art.

According to certain related embodiments there is provided a recombinanthost cell which comprises one or more constructs as described herein; anucleic acid encoding any antibody, CDR, VH or VL domain, orantigen-binding fragment thereof; and a method of production of theencoded product, which method comprises expression from encoding nucleicacid therefor. Expression may conveniently be achieved by culturingunder appropriate conditions recombinant host cells containing thenucleic acid. Following production by expression, an antibody orantigen-binding fragment thereof, may be isolated and/or purified usingany suitable technique, and then used as desired.

Antibodies or antigen-binding fragments thereof as provided herein, andencoding nucleic acid molecules and vectors, may be isolated and/orpurified, e.g. from their natural environment, in substantially pure orhomogeneous form, or, in the case of nucleic acid, free or substantiallyfree of nucleic acid or genes of origin other than the sequence encodinga polypeptide with the desired function. Nucleic acid may comprise DNAor RNA and may be wholly or partially synthetic. Reference to anucleotide sequence as set out herein encompasses a DNA molecule withthe specified sequence, and encompasses a RNA molecule with thespecified sequence in which U is substituted for T, unless contextrequires otherwise.

Systems for cloning and expression of a polypeptide in a variety ofdifferent host cells are well known. Suitable host cells includebacteria, mammalian cells, yeast and baculovirus systems. Mammalian celllines available in the art for expression of a heterologous polypeptideinclude Chinese hamster ovary cells, HeLa cells, baby hamster kidneycells, NSO mouse melanoma cells and many others. A common, preferredbacterial host is E. coli.

The expression of antibodies and antigen-binding fragments inprokaryotic cells such as E. coli is well established in the art. For areview, see for example Pluckthun, A. Bio/Technology 9: 545-551 (1991).Expression in eukaryotic cells in culture is also available to thoseskilled in the art as an option for production of antibodies orantigen-binding fragments thereof, see recent reviews, for example Ref,M. E. (1993) Curr. Opinion Biotech. 4: 573-576; Trill J. J. et al.(1995) Curr. Opinion Biotech 6: 553-560.

Suitable vectors can be chosen or constructed, containing appropriateregulatory sequences, including promoter sequences, terminatorsequences, polyadenylation sequences, enhancer sequences, marker genesand other sequences as appropriate. Vectors may be plasmids, viral e.g.phage, or phagemid, as appropriate. For further details see, forexample, Molecular Cloning: a Laboratory Manual: 2nd edition, Sambrooket al., 1989, Cold Spring Harbor Laboratory Press. Many known techniquesand protocols for manipulation of nucleic acid, for example inpreparation of nucleic acid constructs, mutagenesis, sequencing,introduction of DNA into cells and gene expression, and analysis ofproteins, are described in detail in Current Protocols in MolecularBiology, Second Edition, Ausubel et al. eds., John Wiley & Sons, 1992,or subsequent updates thereto.

The term “host cell” is used to refer to a cell into which has beenintroduced, or which is capable of having introduced into it, a nucleicacid sequence encoding one or more of the herein described antibodies,and which further expresses or is capable of expressing a selected geneof interest, such as a gene encoding any herein described antibody. Theterm includes the progeny of the parent cell, whether or not the progenyare identical in morphology or in genetic make-up to the originalparent, so long as the selected gene is present. Accordingly there isalso contemplated a method comprising introducing such nucleic acid intoa host cell. The introduction may employ any available technique. Foreukaryotic cells, suitable techniques may include calcium phosphatetransfection, DEAE-Dextran, electroporation, liposome-mediatedtransfection and transduction using retrovirus or other virus, e.g.vaccinia or, for insect cells, baculovirus. For bacterial cells,suitable techniques may include calcium chloride transformation,electroporation and transfection using bacteriophage. The introductionmay be followed by causing or allowing expression from the nucleic acid,e.g. by culturing host cells under conditions for expression of thegene. In one embodiment, the nucleic acid is integrated into the genome(e.g. chromosome) of the host cell. Integration may be promoted byinclusion of sequences which promote recombination with the genome, inaccordance-with standard techniques.

The present invention also provides, in certain embodiments, a methodwhich comprises using a construct as stated above in an expressionsystem in order to express a particular polypeptide such as anIL-1β-specific antibody as described herein. The term “transduction” isused to refer to the transfer of genes from one bacterium to another,usually by a phage. “Transduction” also refers to the acquisition andtransfer of eukaryotic cellular sequences by retroviruses. The term“transfection” is used to refer to the uptake of foreign or exogenousDNA by a cell, and a cell has been “transfected” when the exogenous DNAhas been introduced inside the cell membrane. A number of transfectiontechniques are well known in the art and are disclosed herein. See,e.g., Graham et al., 1973, Virology 52:456; Sambrook et al., 2001,MOLECULAR CLONING, A LABORATORY MANUAL, Cold Spring Harbor Laboratories;Davis et al., 1986, BASIC METHODS 1N MOLECULAR BIOLOGY, Elsevier; andChu et al., 1981, Gene 13:197. Such techniques can be used to introduceone or more exogenous DNA moieties into suitable host cells.

The term “transformation” as used herein refers to a change in a cell'sgenetic characteristics, and a cell has been transformed when it hasbeen modified to contain a new DNA. For example, a cell is transformedwhere it is genetically modified from its native state. Followingtransfection or transduction, the transforming DNA may recombine withthat of the cell by physically integrating into a chromosome of thecell, or may be maintained transiently as an episomal element withoutbeing replicated, or may replicate independently as a plasmid. A cell isconsidered to have been stably transformed when the DNA is replicatedwith the division of the cell. The term “naturally occurring” or“native” when used in connection with biological materials such asnucleic acid molecules, polypeptides, host cells, and the like, refersto materials which are found in nature and are not manipulated by ahuman. Similarly, “non-naturally occurring” or “non-native” as usedherein refers to a material that is not found in nature or that has beenstructurally modified or synthesized by a human.

The terms “polypeptide” “protein” and “peptide” and “glycoprotein” areused interchangeably and mean a polymer of amino acids not limited toany particular length. The term does not exclude modifications such asmyristylation, sulfation, glycosylation, phosphorylation and addition ordeletion of signal sequences. The terms “polypeptide” or “protein” meansone or more chains of amino acids, wherein each chain comprises aminoacids covalently linked by peptide bonds, and wherein said polypeptideor protein can comprise a plurality of chains non-covalently and/orcovalently linked together by peptide bonds, having the sequence ofnative proteins, that is, proteins produced by naturally-occurring andspecifically non-recombinant cells, or genetically-engineered orrecombinant cells, and comprise molecules having the amino acid sequenceof the native protein, or molecules having deletions from, additions to,and/or substitutions of one or more amino acids of the native sequence.The terms “polypeptide” and “protein” specifically encompass theantibodies that bind to IL-1β of the present disclosure, or sequencesthat have deletions from, additions to, and/or substitutions of one ormore amino acid of an anti-IL-1β antibody. Thus, a “polypeptide” or a“protein” can comprise one (termed “a monomer”) or a plurality (termed“a multimer”) of amino acid chains.

The term “isolated protein” referred to herein means that a subjectprotein (1) is free of at least some other proteins with which it wouldtypically be found in nature, (2) is essentially free of other proteinsfrom the same source, e.g., from the same species, (3) is expressed by acell from a different species, (4) has been separated from at leastabout 50 percent of polynucleotides, lipids, carbohydrates, or othermaterials with which it is associated in nature, (5) is not associated(by covalent or noncovalent interaction) with portions of a protein withwhich the “isolated protein” is associated in nature, (6) is operablyassociated (by covalent or noncovalent interaction) with a polypeptidewith which it is not associated in nature, or (7) does not occur innature. Such an isolated protein can be encoded by genomic DNA, cDNA,mRNA or other RNA, of may be of synthetic origin, or any combinationthereof. In certain embodiments, the isolated protein is substantiallyfree from proteins or polypeptides or other contaminants that are foundin its natural environment that would interfere with its use(therapeutic, diagnostic, prophylactic, research or otherwise).

The term “polypeptide fragment” refers to a polypeptide, which can bemonomeric or multimeric, that has an amino-terminal deletion, acarboxyl-terminal deletion, and/or an internal deletion or substitutionof a naturally-occurring or recombinantly-produced polypeptide. Incertain embodiments, a polypeptide fragment can comprise an amino acidchain at least 5 to about 500 amino acids long. It will be appreciatedthat in certain embodiments, fragments are at least 4, 5, 6, 7, 8, 9,10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27,28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45,46, 47, 48, 49, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 110, 150,200, 250, 300, 350, 400, or 450 amino acids long. Particularly usefulpolypeptide fragments include functional domains, includingantigen-binding domains or fragments of antibodies. In the case of ananti-IL-1β antibody, useful fragments include, but are not limited to: aCDR region, especially a CDR3 region of the heavy or light chain; avariable region of a heavy or light chain; a portion of an antibodychain or just its variable region including two CDRs; and the like (seee.g., FIG. 1 and the sequences provided in the sequence listing)

Polypeptides may comprise a signal (or leader) sequence at theN-terminal end of the protein, which co-translationally orpost-translationally directs transfer of the protein. The polypeptidemay also be fused in-frame or conjugated to a linker or other sequencefor ease of synthesis, purification or identification of the polypeptide(e.g., poly-His), or to enhance binding of the polypeptide to a solidsupport.

A peptide linker/spacer sequence may also be employed to separatemultiple polypeptide components by a distance sufficient to ensure thateach polypeptide folds into its secondary and/or tertiary structures, ifdesired. Such a peptide linker sequence can be incorporated into afusion polypeptide using standard techniques well known in the art.

Certain peptide spacer sequences may be chosen, for example, based on:(1) their ability to adopt a flexible extended conformation; (2) theirinability to adopt a secondary structure that could interact withfunctional epitopes on the first and second polypeptides; and/or (3) thelack of hydrophobic or charged residues that might react with thepolypeptide functional epitopes.

In one illustrative embodiment, peptide spacer sequences contain, forexample, Gly, Asn and Ser residues. Other near neutral amino acids, suchas Thr and Ala, may also be included in the spacer sequence.

Other amino acid sequences which may be usefully employed as spacersinclude those disclosed in Maratea et al., Gene 40:39 46 (1985); Murphyet al., Proc. Natl. Acad. Sci. USA 83:8258 8262 (1986); U.S. Pat. No.4,935,233 and U.S. Pat. No. 4,751,180.

Other illustrative spacers may include, for example,Glu-Gly-Lys-Ser-Ser-Gly-Ser-Gly-Ser-Glu-Ser-Lys-Val-Asp (Chaudhary etal., 1990, Proc. Natl. Acad. Sci. U.S.A. 87:1066-1070) andLys-Glu-Ser-Gly-Ser-Val-Ser-Ser-Glu-Gln-Leu-Ala-Gln-Phe-Arg-Ser-Leu-Asp(Bird et al., 1988, Science 242:423-426).

In some embodiments, spacer sequences are not required when the firstand second polypeptides have non-essential N-terminal amino acid regionsthat can be used to separate the functional domains and prevent stericinterference. Two coding sequences can be fused directly without anyspacer or by using a flexible polylinker composed, for example, of thepentamer Gly-Gly-Gly-Gly-Ser repeated 1 to 3 times. Such a spacer hasbeen used in constructing single chain antibodies (scFv) by beinginserted between VH and VL (Bird et al., 1988, Science 242:423-426;Huston et al., 1988, Proc. Natl. Acad. Sci. U.S.A. 85:5979-5883).

A peptide spacer, in certain embodiments, is designed to enable thecorrect interaction between two beta-sheets forming the variable regionof the single chain antibody.

In certain illustrative embodiments, a peptide spacer is between 1 to 5amino acids, between 5 to 10 amino acids, between 5 to 25 amino acids,between 5 to 50 amino acids, between 10 to 25 amino acids, between 10 to50 amino acids, between 10 to 100 amino acids, or any intervening rangeof amino acids.

In other illustrative embodiments, a peptide spacer comprises about 1,5, 10, 15, 20, 25, 30, 35, 40, 45, 50 or more amino acids in length.

Amino acid sequence modification(s) of the antibodies described hereinare contemplated. For example, it may be desirable to improve thebinding affinity and/or other biological properties of the antibody. Forexample, amino acid sequence variants of an antibody may be prepared byintroducing appropriate nucleotide changes into a polynucleotide thatencodes the antibody, or a chain thereof, or by peptide synthesis. Suchmodifications include, for example, deletions from, and/or insertionsinto and/or substitutions of, residues within the amino acid sequencesof the antibody. Any combination of deletion, insertion, andsubstitution may be made to arrive at the final antibody, provided thatthe final construct possesses the desired characteristics (e.g., highaffinity binding to IL-1β). The amino acid changes also may alterpost-translational processes of the antibody, such as changing thenumber or position of glycosylation sites. Any of the variations andmodifications described above for polypeptides of the present inventionmay be included in antibodies of the present invention.

The present disclosure provides variants of the antibodies disclosedherein. In certain embodiments, such variant antibodies orantigen-binding fragments, or CDRs thereof, bind to IL-1β at least about50%, at least about 70%, and in certain embodiments, at least about 90%as well as an antibody sequence specifically set forth herein. Infurther embodiments, such variant antibodies or antigen-bindingfragments, or CDRs thereof, bind to IL-1β with greater affinity than theantibodies set forth herein, for example, that bind quantitatively atleast about 105%, 106%, 107%, 108%, 109%, or 110% as well as an antibodysequence specifically set forth herein.

In particular embodiments, a subject antibody may have: a) a heavy chainvariable region having an amino acid sequence that is at least 80%identical, at least 95% identical, at least 90%, at least 95% or atleast 98% or 99% identical, to the heavy chain variable region of ananti-IL-1β antibody described herein; and b) a light chain variableregion having an amino acid sequence that is at least 80% identical, atleast 85%, at least 90%, at least 95% or at least 98% or 99% identical,to the light chain variable region of an anti-IL-1β antibody describedherein. The amino acid sequence of illustrative heavy and light chainregions are set forth in SEQ ID NOs:1-12).

In particular embodiments, the antibody may comprise: a) a heavy chainvariable region comprising: i. a CDR1 region that is identical in aminoacid sequence to the heavy chain CDR1 region of a selected antibodydescribed herein; ii. a CDR2 region that is identical in amino acidsequence to the heavy chain CDR2 region of the selected antibody; andiii. a CDR3 region that is identical in amino acid sequence to the heavychain CDR3 region of the selected antibody; and b) a light chainvariable domain comprising: i. a CDR1 region that is identical in aminoacid sequence to the light chain CDR1 region of the selected antibody;ii. a CDR2 region that is identical in amino acid sequence to the lightchain CDR2 region of the selected antibody; and iii. a CDR3 region thatis identical in amino acid sequence to the light chain CDR3 region ofthe selected antibody; wherein the antibody specifically binds aselected target (e.g., IL-1β). In a further embodiment, the antibody, orantigen-binding fragment thereof, is a variant antibody wherein thevariant comprises a heavy and light chain identical to the selectedantibody except for up to 8, 9, 10, 11, 12, 13, 14, 15, or more aminoacid substitutions in the CDR regions of the VH and VL regions. In thisregard, there may be 1, 2, 3, 4, 5, 6, 7, 8, or in certain embodiments,9, 10, 11, 12, 13, 14, 15 more amino acid substitutions in the CDRregions of the selected antibody. Substitutions may be in CDRs either inthe VH and/or the VL regions. (See e.g., Muller, 1998, Structure6:1153-1167).

Determination of the three-dimensional structures of representativepolypeptides (e.g., variant IL-1β-specific antibodies as providedherein, for instance, an antibody protein having an antigen-bindingfragment as provided herein) may be made through routine methodologiessuch that substitution, addition, deletion or insertion of one or moreamino acids with selected natural or non-natural amino acids can bevirtually modeled for purposes of determining whether a so derivedstructural variant retains the space-filling properties of presentlydisclosed species. See, for instance, Donate et al., 1994 Prot. Sci.3:2378; Bradley et al., Science 309: 1868-1871 (2005); Schueler-Furmanet al., Science 310:638 (2005); Dietz et al., Proc. Nat. Acad. Sci. USA103:1244 (2006); Dodson et al., Nature 450:176 (2007); Qian et al.,Nature 450:259 (2007); Raman et al. Science 327:1014-1018 (2010). Someadditional non-limiting examples of computer algorithms that may be usedfor these and related embodiments, such as for rational design ofIL-1β-specific antibodies antigen-binding domains thereof as providedherein, include VMD which is a molecular visualization program fordisplaying, animating, and analyzing large biomolecular systems using3-D graphics and built-in scripting (see the website for the Theoreticaland Computational Biophysics Group, University of Illinois atUrbana-Champagne, at ks.uiuc.edu/Research/vmd/. Many other computerprograms are known in the art and available to the skilled person andwhich allow for determining atomic dimensions from space-filling models(van der Waals radii) of energy-minimized conformations; GRID, whichseeks to determine regions of high affinity for different chemicalgroups, thereby enhancing binding, Monte Carlo searches, which calculatemathematical alignment, and CHARMM (Brooks et al. (1983) J. Comput.Chem. 4:187-217) and AMBER (Weiner et al (1981) J. Comput. Chem. 106:765), which assess force field calculations, and analysis (see also,Eisenfield et al. (1991) Am. J. Physiol. 261:C376-386; Lybrand (1991) J.Pharm. Belg. 46:49-54; Froimowitz (1990) Biotechniques 8:640-644; Burbamet al. (1990) Proteins 7:99-111; Pedersen (1985) Environ. HealthPerspect. 61:185-190; and Kini et al. (1991) J. Biomol. Struct. Dyn.9:475-488). A variety of appropriate computational computer programs arealso commercially available, such as from Schrodinger (Munich, Germany).

In another embodiment of invention, the anti-IL-1β antibodies andhumanized versions thereof are derived from rabbit monoclonalantibodies, and in particular are generated using RabMAb® technology.These antibodies are advantageous as they require minimal sequencemodifications, thereby facilitating retention of functional propertiesafter humanization using mutational lineage guided (MLG) humanizationtechnology (see e.g., U.S. Pat. No. 7,462,697). Thus, illustrativemethods for making the anti-IL-1β antibodies of the present disclosureinclude the RabMab® rabbit monoclonal antibody technology described, forexample, in U.S. Pat. Nos. 5,675,063 and 7,429,487. In this regard, incertain embodiments, the anti-IL-1β antibodies of the disclosure areproduced in rabbits. In particular embodiments, a rabbit-derivedimmortal B-lymphocyte capable of fusion with a rabbit splenocyte is usedto produce a hybrid cell that produces an antibody. The immortalB-lymphocyte does not detectably express endogenous immunoglobulin heavychain and may contain, in certain embodiments, an altered immunoglobulinheavy chain-encoding gene.

Compositions and Methods of Use

The present disclosure provides compositions comprising theIL-1β-specific antibodies, antigen-binding fragments thereof andadministration of such composition in a variety of therapeutic settings.

Administration of the IL-1β-specific antibodies described herein, inpure form or in an appropriate pharmaceutical composition, can becarried out via any of the accepted modes of administration of agentsfor serving similar utilities. The pharmaceutical compositions can beprepared by combining an antibody or antibody-containing compositionwith an appropriate physiologically acceptable carrier, diluent orexcipient, and may be formulated into preparations in solid, semi-solid,liquid or gaseous forms, such as tablets, capsules, powders, granules,ointments, solutions, suppositories, injections, inhalants, gels,microspheres, and aerosols. In addition, other pharmaceutically activeingredients (including other anti-cancer agents as described elsewhereherein) and/or suitable excipients such as salts, buffers andstabilizers may, but need not, be present within the composition.Administration may be achieved by a variety of different routes,including oral, parenteral, nasal, intravenous, intradermal,subcutaneous or topical. Preferred modes of administration depend uponthe nature of the condition to be treated or prevented. An amount that,following administration, reduces, inhibits, prevents or delays theprogression and/or metastasis of a cancer is considered effective.

In certain embodiments, the amount administered is sufficient to resultin clinically relevant reduction in inflammatory and autoimmune symptomsof a particular disease indication known to the skilled clinician.

The precise dosage and duration of treatment is a function of thedisease being treated and may be determined empirically using knowntesting protocols or by testing the compositions in model systems knownin the art and extrapolating therefrom. Controlled clinical trials mayalso be performed. Dosages may also vary with the severity of thecondition to be alleviated. A pharmaceutical composition is generallyformulated and administered to exert a therapeutically useful effectwhile minimizing undesirable side effects. The composition may beadministered one time, or may be divided into a number of smaller dosesto be administered at intervals of time. For any particular subject,specific dosage regimens may be adjusted over time according to theindividual need.

The IL-1β-specific antibody-containing compositions may be administeredalone or in combination with other known cancer treatments, such asradiation therapy, chemotherapy, transplantation, immunotherapy, hormonetherapy, photodynamic therapy, etc. The compositions may also beadministered in combination with antibiotics.

Typical routes of administering these and related pharmaceuticalcompositions thus include, without limitation, oral, topical,transdermal, inhalation, parenteral, sublingual, buccal, rectal,vaginal, and intranasal. The term parenteral as used herein includessubcutaneous injections, intravenous, intramuscular, intrasternalinjection or infusion techniques. Pharmaceutical compositions accordingto certain embodiments of the present invention are formulated so as toallow the active ingredients contained therein to be bioavailable uponadministration of the composition to a patient. Compositions that willbe administered to a subject or patient may take the form of one or moredosage units, where for example, a tablet may be a single dosage unit,and a container of a herein described IL-1β-specific antibody in aerosolform may hold a plurality of dosage units. Actual methods of preparingsuch dosage forms are known, or will be apparent, to those skilled inthis art; for example, see Remington: The Science and Practice ofPharmacy, 20th Edition (Philadelphia College of Pharmacy and Science,2000). The composition to be administered will, in any event, contain atherapeutically effective amount of an antibody of the presentdisclosure, for treatment of a disease or condition of interest inaccordance with teachings herein.

A pharmaceutical composition may be in the form of a solid or liquid. Inone embodiment, the carrier(s) are particulate, so that the compositionsare, for example, in tablet or powder form. The carrier(s) may beliquid, with the compositions being, for example, an oral oil,injectable liquid or an aerosol, which is useful in, for example,inhalatory administration. When intended for oral administration, thepharmaceutical composition is preferably in either solid or liquid form,where semi-solid, semi-liquid, suspension and gel forms are includedwithin the forms considered herein as either solid or liquid.

As a solid composition for oral administration, the pharmaceuticalcomposition may be formulated into a powder, granule, compressed tablet,pill, capsule, chewing gum, wafer or the like. Such a solid compositionwill typically contain one or more inert diluents or edible carriers. Inaddition, one or more of the following may be present: binders such ascarboxymethylcellulose, ethyl cellulose, microcrystalline cellulose, gumtragacanth or gelatin; excipients such as starch, lactose or dextrins,disintegrating agents such as alginic acid, sodium alginate, Primogel,corn starch and the like; lubricants such as magnesium stearate orSterotex; glidants such as colloidal silicon dioxide; sweetening agentssuch as sucrose or saccharin; a flavoring agent such as peppermint,methyl salicylate or orange flavoring; and a coloring agent. When thepharmaceutical composition is in the form of a capsule, for example, agelatin capsule, it may contain, in addition to materials of the abovetype, a liquid carrier such as polyethylene glycol or oil.

The pharmaceutical composition may be in the form of a liquid, forexample, an elixir, syrup, solution, emulsion or suspension. The liquidmay be for oral administration or for delivery by injection, as twoexamples. When intended for oral administration, preferred compositioncontain, in addition to the present compounds, one or more of asweetening agent, preservatives, dye/colorant and flavor enhancer. In acomposition intended to be administered by injection, one or more of asurfactant, preservative, wetting agent, dispersing agent, suspendingagent, buffer, stabilizer and isotonic agent may be included.

The liquid pharmaceutical compositions, whether they be solutions,suspensions or other like form, may include one or more of the followingadjuvants: sterile diluents such as water for injection, salinesolution, preferably physiological saline, Ringer's solution, isotonicsodium chloride, fixed oils such as synthetic mono or diglycerides whichmay serve as the solvent or suspending medium, polyethylene glycols,glycerin, propylene glycol or other solvents; antibacterial agents suchas benzyl alcohol or methyl paraben; antioxidants such as ascorbic acidor sodium bisulfite; chelating agents such as ethylenediaminetetraaceticacid; buffers such as acetates, citrates or phosphates and agents forthe adjustment of tonicity such as sodium chloride or dextrose. Theparenteral preparation can be enclosed in ampoules, disposable syringesor multiple dose vials made of glass or plastic. Physiological saline isa preferred adjuvant. An injectable pharmaceutical composition ispreferably sterile.

A liquid pharmaceutical composition intended for either parenteral ororal administration should contain an amount of an IL-1β-specificantibody as herein disclosed such that a suitable dosage will beobtained. Typically, this amount is at least 0.01% of the antibody inthe composition. When intended for oral administration, this amount maybe varied to be between 0.1 and about 70% of the weight of thecomposition. Certain oral pharmaceutical compositions contain betweenabout 4% and about 75% of the antibody. In certain embodiments,pharmaceutical compositions and preparations according to the presentinvention are prepared so that a parenteral dosage unit contains between0.01 to 10% by weight of the antibody prior to dilution.

The pharmaceutical composition may be intended for topicaladministration, in which case the carrier may suitably comprise asolution, emulsion, ointment or gel base. The base, for example, maycomprise one or more of the following: petrolatum, lanolin, polyethyleneglycols, bee wax, mineral oil, diluents such as water and alcohol, andemulsifiers and stabilizers. Thickening agents may be present in apharmaceutical composition for topical administration. If intended fortransdermal administration, the composition may include a transdermalpatch or iontophoresis device. The pharmaceutical composition may beintended for rectal administration, in the form, for example, of asuppository, which will melt in the rectum and release the drug. Thecomposition for rectal administration may contain an oleaginous base asa suitable nonirritating excipient. Such bases include, withoutlimitation, lanolin, cocoa butter and polyethylene glycol.

The pharmaceutical composition may include various materials, whichmodify the physical form of a solid or liquid dosage unit. For example,the composition may include materials that form a coating shell aroundthe active ingredients. The materials that form the coating shell aretypically inert, and may be selected from, for example, sugar, shellac,and other enteric coating agents. Alternatively, the active ingredientsmay be encased in a gelatin capsule. The pharmaceutical composition insolid or liquid form may include an agent that binds to the antibody ofthe invention and thereby assists in the delivery of the compound.Suitable agents that may act in this capacity include other monoclonalor polyclonal antibodies, one or more proteins or a liposome. Thepharmaceutical composition may consist essentially of dosage units thatcan be administered as an aerosol. The term aerosol is used to denote avariety of systems ranging from those of colloidal nature to systemsconsisting of pressurized packages. Delivery may be by a liquefied orcompressed gas or by a suitable pump system that dispenses the activeingredients. Aerosols may be delivered in single phase, bi-phasic, ortri-phasic systems in order to deliver the active ingredient(s).Delivery of the aerosol includes the necessary container, activators,valves, subcontainers, and the like, which together may form a kit. Oneof ordinary skill in the art, without undue experimentation maydetermine preferred aerosols.

The pharmaceutical compositions may be prepared by methodology wellknown in the pharmaceutical art. For example, a pharmaceuticalcomposition intended to be administered by injection can be prepared bycombining a composition that comprises an IL-1β-specific antibody asdescribed herein and optionally, one or more of salts, buffers and/orstabilizers, with sterile, distilled water so as to form a solution. Asurfactant may be added to facilitate the formation of a homogeneoussolution or suspension. Surfactants are compounds that non-covalentlyinteract with the antibody composition so as to facilitate dissolutionor homogeneous suspension of the antibody in the aqueous deliverysystem.

The compositions may be administered in a therapeutically effectiveamount, which will vary depending upon a variety of factors includingthe activity of the specific compound (e.g., IL-1β-specific antibody)employed; the metabolic stability and length of action of the compound;the age, body weight, general health, sex, and diet of the patient; themode and time of administration; the rate of excretion; the drugcombination; the severity of the particular disorder or condition; andthe subject undergoing therapy. Generally, a therapeutically effectivedaily dose is (for a 70 kg mammal) from about 0.001 mg/kg (i.e., 0.07mg) to about 100 mg/kg (i.e., 7.0 g); preferably a therapeuticallyeffective dose is (for a 70 kg mammal) from about 0.01 mg/kg (i.e., 0.7mg) to about 50 mg/kg (i.e., 3.5 g); more preferably a therapeuticallyeffective dose is (for a 70 kg mammal) from about 1 mg/kg (i.e., 70 mg)to about 25 mg/kg (i.e., 1.75 g).

Compositions comprising the IL-1β-specific antibodies of the presentdisclosure may also be administered simultaneously with, prior to, orafter administration of one or more other therapeutic agents. Suchcombination therapy may include administration of a singlepharmaceutical dosage formulation which contains a compound of theinvention and one or more additional active agents, as well asadministration of compositions comprising antibodies of the inventionand each active agent in its own separate pharmaceutical dosageformulation. For example, an antibody as described herein and the otheractive agent can be administered to the patient together in a singleoral dosage composition such as a tablet or capsule, or each agentadministered in separate oral dosage formulations. Similarly, anantibody as described herein and the other active agent can beadministered to the patient together in a single parenteral dosagecomposition such as in a saline solution or other physiologicallyacceptable solution, or each agent administered in separate parenteraldosage formulations. Where separate dosage formulations are used, thecompositions comprising antibodies and one or more additional activeagents can be administered at essentially the same time, i.e.,concurrently, or at separately staggered times, i.e., sequentially andin any order; combination therapy is understood to include all theseregimens.

Thus, in certain embodiments, also contemplated is the administration ofanti-IL-1β antibody compositions of this disclosure in combination withone or more other therapeutic agents. Such therapeutic agents may beaccepted in the art as a standard treatment for a particular diseasestate as described herein, such as rheumatoid arthritis, inflammation orcancer. Exemplary therapeutic agents contemplated include cytokines,growth factors, steroids, NSAIDs, DMARDs, anti-inflammatories,chemotherapeutics, radiotherapeutics, or other active and ancillaryagents.

In certain embodiments, the anti-IL-1β antibodies disclosed herein maybe administered in conjunction with any number of chemotherapeuticagents. Examples of chemotherapeutic agents include alkylating agentssuch as thiotepa and cyclophosphamide (CYTOXAN™); alkyl sulfonates suchas busulfan, improsulfan and piposulfan; aziridines such as benzodopa,carboquone, meturedopa, and uredopa; ethylenimines and methylamelaminesincluding altretamine, triethylenemelamine, trietylenephosphoramide,triethylenethiophosphaoramide and trimethylolomelamine; nitrogenmustards such as chlorambucil, chlornaphazine, cholophosphamide,estramustine, ifosfamide, mechlorethamine, mechlorethamine oxidehydrochloride, melphalan, novembichin, phenesterine, prednimustine,trofosfamide, uracil mustard; nitrosureas such as carmustine,chlorozotocin, fotemustine, lomustine, nimustine, ranimustine;antibiotics such as aclacinomysins, actinomycin, authramycin, azaserine,bleomycins, cactinomycin, calicheamicin, carabicin, caminomycin,carzinophilin, chromomycins, dactinomycin, daunorubicin, detorubicin,6-diazo-5-oxo-L-norleucine, doxorubicin, epirubicin, esorubicin,idarubicin, marcellomycin, mitomycins, mycophenolic acid, nogalamycin,olivomycins, peplomycin, potfiromycin, puromycin, quelamycin,rodorubicin, streptonigrin, streptozocin, tubercidin, ubenimex,zinostatin, zorubicin; anti-metabolites such as methotrexate and5-fluorouracil (5-FU); folic acid analogues such as denopterin,methotrexate, pteropterin, trimetrexate; purine analogs such asfludarabine, 6-mercaptopurine, thiamiprine, thioguanine; pyrimidineanalogs such as ancitabine, azacitidine, 6-azauridine, carmofur,cytarabine, dideoxyuridine, doxifluridine, enocitabine, floxuridine,5-FU; androgens such as calusterone, dromostanolone propionate,epitiostanol, mepitiostane, testolactone; anti-adrenals such asaminoglutethimide, mitotane, trilostane; folic acid replenisher such asfrolinic acid; aceglatone; aldophosphamide glycoside; aminolevulinicacid; amsacrine; bestrabucil; bisantrene; edatraxate; defofamine;demecolcine; diaziquone; elformithine; elliptinium acetate; etoglucid;gallium nitrate; hydroxyurea; lentinan; lonidamine; mitoguazone;mitoxantrone; mopidamol; nitracrine; pentostatin; phenamet; pirarubicin;podophyllinic acid; 2-ethylhydrazide; procarbazine; PSK®; razoxane;sizofiran; spirogermanium; tenuazonic acid; triaziquone; 2,2′,2″-trichlorotriethylamine; urethan; vindesine; dacarbazine;mannomustine; mitobronitol; mitolactol; pipobroman; gacytosine;arabinoside (“Ara-C”); cyclophosphamide; thiotepa; taxoids, e.g.paclitaxel (TAXOL®, Bristol-Myers Squibb Oncology, Princeton, N.J.) anddoxetaxel (TAXOTERE®., Rhne-Poulenc Rorer, Antony, France);chlorambucil; gemcitabine; 6-thioguanine; mercaptopurine; methotrexate;platinum analogs such as cisplatin and carboplatin; vinblastine;platinum; etoposide (VP-16); ifosfamide; mitomycin C; mitoxantrone;vincristine; vinorelbine; navelbine; novantrone; teniposide; daunomycin;aminopterin; xeloda; ibandronate; CPT-11; topoisomerase inhibitor RFS2000; difluoromethylomithine (DMFO); retinoic acid derivatives such asTargretin™ (bexarotene), Panretin™ (alitretinoin); ONTAK™ (denileukindiftitox); esperamicins; capecitabine; and pharmaceutically acceptablesalts, acids or derivatives of any of the above. Also included in thisdefinition are anti-hormonal agents that act to regulate or inhibithormone action on tumors such as anti-estrogens including for exampletamoxifen, raloxifene, aromatase inhibiting 4(5)-imidazoles,4-hydroxytamoxifen, trioxifene, keoxifene, LY117018, onapristone, andtoremifene (Fareston); and anti-androgens such as flutamide, nilutamide,bicalutamide, leuprolide, and goserelin; and pharmaceutically acceptablesalts, acids or derivatives of any of the above.

A variety of other therapeutic agents may be used in conjunction withthe anti-IL-1β antibodies described herein. In one embodiment, theantibody is administered with an anti-inflammatory agent.Anti-inflammatory agents or drugs include, but are not limited to,steroids and glucocorticoids (including betamethasone, budesonide,dexamethasone, hydrocortisone acetate, hydrocortisone, hydrocortisone,methylprednisolone, prednisolone, prednisone, triamcinolone),nonsteroidal anti-inflammatory drugs (NSAIDS) including aspirin,ibuprofen, naproxen, methotrexate, sulfasalazine, leflunomide, anti-TNFmedications, cyclophosphamide and mycophenolate.

Exemplary NSAIDs are chosen from the group consisting of ibuprofen,naproxen, naproxen sodium, Cox-2 inhibitors such as VIOXX® (rofecoxib)and CELEBREX® (celecoxib), and sialylates. Exemplary analgesics arechosen from the group consisting of acetaminophen, oxycodone, tramadolof proporxyphene hydrochloride. Exemplary glucocorticoids are chosenfrom the group consisting of cortisone, dexamethasone, hydrocortisone,methylprednisolone, prednisolone, or prednisone. Exemplary biologicalresponse modifiers include molecules directed against cell surfacemarkers (e.g., CD4, CD5, etc.), cytokine inhibitors, such as the TNFantagonists (e.g., etanercept (ENBREL®), adalimumab (HUMIRA®) andinfliximab (REMICADE®)), chemokine inhibitors and adhesion moleculeinhibitors. The biological response modifiers include monoclonalantibodies as well as recombinant forms of molecules. Exemplary DMARDsinclude azathioprine, cyclophosphamide, cyclosporine, methotrexate,penicillamine, leflunomide, sulfasalazine, hydroxychloroquine, Gold(oral (auranofin) and intramuscular) and minocycline.

In certain embodiments, the antibodies described herein are administeredin conjunction with a cytokine. By “cytokine” as used herein is meant ageneric term for proteins released by one cell population that act onanother cell as intercellular mediators. Examples of such cytokines arelymphokines, monokines, and traditional polypeptide hormones. Includedamong the cytokines are growth hormones such as human growth hormone,N-methionyl human growth hormone, and bovine growth hormone; parathyroidhormone; thyroxine; insulin; proinsulin; relaxin; prorelaxin;glycoprotein hormones such as follicle stimulating hormone (FSH),thyroid stimulating hormone (TSH), and luteinizing hormone (LH); hepaticgrowth factor; fibroblast growth factor; prolactin; placental lactogen;tumor necrosis factor-alpha and -beta; mullerian-inhibiting substance;mouse gonadotropin-associated peptide; inhibin; activin; vascularendothelial growth factor; integrin; thrombopoietin (TPO); nerve growthfactors such as NGF-beta; platelet-growth factor; transforming growthfactors (TGFs) such as TGF-alpha and TGF-beta; insulin-like growthfactor-I and -II; erythropoietin (EPO); osteoinductive factors;interferons such as interferon-alpha, beta, and -gamma; colonystimulating factors (CSFs) such as macrophage-CSF (M-CSF);granulocyte-macrophage-CSF (GM-CSF); and granulocyte-CSF (G-CSF);interleukins (ILs) such as IL-1, IL-1alpha, IL-2, IL-3, IL-4, IL-5,IL-6, IL-7, IL-8, IL-9, IL-10, IL-11, IL-12; IL-15, a tumor necrosisfactor such as TNF-alpha or TNF-beta; and other polypeptide factorsincluding LIF and kit ligand (KL). As used herein, the term cytokineincludes proteins from natural sources or from recombinant cell culture,and biologically active equivalents of the native sequence cytokines.

The compositions comprising herein described IL-1β-specific antibodiesmay be administered to an individual afflicted with a disease asdescribed herein, including, but not limited to inflammatory andautoimmune disorders. In particular, the antibodies described herein areuseful for the treatment of rheumatoid arthritis, diabetes, gout,cryopyrin-associated periodic syndrome, chronic obstructive pulmonarydisorder and various cardiovascular diseases such as atherosclerosis andvasculitis. The present antibodies are useful for the treatment ofautoimmune and inflammatory syndromes characterized by attacks ofsterile inflammation of joints, serositis, fever, and skin lesions.Inflammatory disease include, but are not limited to, Crohn's disease,colitis, dermatitis, psoriasis, diverticulitis, hepatitis, irritablebowel syndrome (IBS), lupus erythematous, nephritis, Parkinson'sdisease, ulcerative colitis, multiple sclerosis (MS), Alzheimer'sdisease, arthritis, rheumatoid arthritis, asthma, and variouscardiovascular diseases such as atherosclerosis and vasculitis. In oneembodiment, the present disclosure provides a method of treating,reducing the severity of or preventing inflammation or an inflammatorydisease by administering to a patient in need thereof a therapeuticallyeffective amount of a herein disclosed compositions. The presentcompositions comprising anti-IL-1β antibodies are useful for treatingautoimmune diseases such as arthritis (including rheumatoid arthritis,reactive arthritis), systemic lupus erythematosus (SLE), psoriasis andinflammatory bowel disease (IBD), encephalomyelitis, uveitis, myastheniagravis, multiple sclerosis, insulin dependent diabetes, Addison'sdisease, celiac disease, chronic fatigue syndrome, autoimmune hepatitis,autoimmune alopecia, ankylosing spondylitis, ulcerative colitis, Crohn'sdisease, fibromyalgia, pemphigus vulgaris, Sjogren's syndrome,Kawasaki's Disease, hyperthyroidism/Graves disease,hypothyroidism/Hashimoto's disease, endometriosis, scleroderma,pernicious anemia, Goodpasture syndrome, Guillain-Barrë syndrome,Wegener's disease, glomerulonephritis, aplastic anemia (includingmultiply transfused aplastic anemia patients), paroxysmal nocturnalhemoglobinuria, myelodysplastic syndrome, idiopathic thrombocytopenicpurpura, autoimmune hemolytic anemia, Evan's syndrome, Factor VIIIinhibitor syndrome, systemic vasculitis, dermatomyositis, polymyositisand rheumatic fever, Autoimmune Lymphoproliferative Syndrome (ALPS),Autoimmune Bullous Pemphigoid, Parkinson's, sarcoidosis, vitiligo,primary biliary cirrhosis, and autoimmune myocarditis.

For in vivo use for the treatment of human disease, the antibodiesdescribed herein are generally incorporated into a pharmaceuticalcomposition prior to administration. A pharmaceutical compositioncomprises one or more of the antibodies described herein in combinationwith a physiologically acceptable carrier or excipient as describedelsewhere herein. To prepare a pharmaceutical composition, an effectiveamount of one or more of the compounds is mixed with any pharmaceuticalcarrier(s) or excipient known to those skilled in the art to be suitablefor the particular mode of administration. A pharmaceutical carrier maybe liquid, semi-liquid or solid. Solutions or suspensions used forparenteral, intradermal, subcutaneous or topical application mayinclude, for example, a sterile diluent (such as water), salinesolution, fixed oil, polyethylene glycol, glycerin, propylene glycol orother synthetic solvent; antimicrobial agents (such as benzyl alcoholand methyl parabens); antioxidants (such as ascorbic acid and sodiumbisulfite) and chelating agents (such as ethylenediaminetetraacetic acid(EDTA)); buffers (such as acetates, citrates and phosphates). Ifadministered intravenously, suitable carriers include physiologicalsaline or phosphate buffered saline (PBS), and solutions containingthickening and solubilizing agents, such as glucose, polyethyleneglycol, polypropylene glycol and mixtures thereof.

The compositions comprising IL-1β-specific antibodies as describedherein may be prepared with carriers that protect the antibody againstrapid elimination from the body, such as time release formulations orcoatings. Such carriers include controlled release formulations, suchas, but not limited to, implants and microencapsulated delivery systems,and biodegradable, biocompatible polymers, such as ethylene vinylacetate, polyanhydrides, polyglycolic acid, polyorthoesters, polylacticacid and others known to those of ordinary skill in the art.

Provided herein are methods of treatment using the antibodies that bindIL-1β. In one embodiment, an antibody of the present invention isadministered to a patient having a disease involving inappropriateexpression of IL-1β, which is meant in the context of the presentdisclosure to include diseases and disorders characterized by aberrantIL-1β expression or activity, due for example to alterations (e.g.,statistically significant increases or decreases) in the amount of aprotein present, or the presence of a mutant protein, or both. Anoverabundance may be due to any cause, including but not limited tooverexpression at the molecular level, prolonged or accumulatedappearance at the site of action, or increased (e.g., in a statisticallysignificant manner) activity of IL-1β relative to that which is normallydetectable. Such an overabundance of IL-1β can be measured relative tonormal expression, appearance, or activity of IL-1β signalling events,and said measurement may play an important role in the developmentand/or clinical testing of the antibodies described herein.

Another embodiment provides a method for treating, inhibiting theprogression of or prevention of any of a variety of inflammatory orautoimmune diseases by administering to a patient afflicted by one ormore of these diseases a therapeutically effective amount of a hereindisclosed IL-1β-specific antibody.

In another embodiment, anti-IL-1β antibodies of the present inventionare used to determine the structure of bound antigen, e.g.,conformational epitopes, which structure may then be used to developcompounds having or mimicking this structure, e.g., through chemicalmodeling and SAR methods.

Various other embodiments of the present invention relate, in part, todiagnostic applications for detecting the presence of cells or tissuesexpressing IL-1β. Thus, the present disclosure provides methods ofdetecting IL-1β in a sample, such as detection of cells or tissuesexpressing IL-1β. Such methods can be applied in a variety of knowndetection formats, including, but not limited to immunohistochemistry(IHC), immunocytochemistry (ICC), in situ hybridization (ISH),whole-mount in situ hybridization (WISH), fluorescent DNA in situhybridization (FISH), flow cytometry, enzyme immuno-assay (EIA), andenzyme linked immuno-assay (ELISA).

ISH is a type of hybridization that uses a labeled complementary DNA orRNA strand (i.e., primary binding agent) to localize a specific DNA orRNA sequence in a portion or section of a cell or tissue (in situ), orif the tissue is small enough, the entire tissue (whole mount ISH). Onehaving ordinary skill in the art would appreciate that this is distinctfrom immunohistochemistry, which localizes proteins in tissue sectionsusing an antibody as a primary binding agent. DNA ISH can be used ongenomic DNA to determine the structure of chromosomes. Fluorescent DNAISH (FISH) can, for example, be used in medical diagnostics to assesschromosomal integrity. RNA ISH (hybridization histochemistry) is used tomeasure and localize mRNAs and other transcripts within tissue sectionsor whole mounts.

The term “epitope tagged” as used herein refers to a chimericpolypeptide comprising a polypeptide, such as an antibody or fragment ofthe present invention, fused to a “tag polypeptide.” The tag polypeptidehas enough residues to provide an epitope against which an antibody canbe made, yet is short enough such that it does not interfere withactivity of the polypeptide to which it is fused. The tag polypeptide isalso preferably fairly unique so that the antibody does notsubstantially cross-react with other epitopes. Suitable tag polypeptidesgenerally have at least six amino acid residues and usually betweenabout 8 and 50 amino acid residues (preferably, between about 10 and 20amino acid residues). In some embodiments, the epitope tag as found in achimeric polypeptide described herein is useful, for example, foridentifying and isolating the tagged proteins.

Various tag polypeptides and their respective antibodies are well knownin the art. Examples include poly-histidine (HIS6; poly-his) orpoly-histidine-glycine (poly-his-gly) tags; the flu HA tag polypeptideand its antibody 12CA5 (Field et al., Mol. Cell. Biol., 8:2159-2165(1988)); the c-myc tag and the 8F9, 3C7, 6E10, G4, B7 and 9E10antibodies thereto (Evan et al., Molecular and Cellular Biology,5:3610-3616 (1985); and the Herpes Simplex virus glycoprotein D (gD) tagand its antibody (Paborsky et al., Protein Engineering, 3(6):547-553(1990)). Another example is the FLAG-peptide (Hopp et al.,BioTechnology, 6:1204-1210 (1988)), which is recognized by an anti-FLAGM2 monoclonal antibody (Sigma, St. Louis, Mo.). Purification of aprotein containing the FLAG peptide can be performed by immunoaffinitychromatography using an affinity matrix comprising the anti-FLAG M2monoclonal antibody covalently attached to agarose (Eastman Kodak Co.,New Haven, Conn.). Examples of other tag polypeptides include the KT3epitope peptide (Martin et al., Science, 255:192-194 (1992)); anα-tubulin epitope peptide (Skinner et al., J. Biol. Chem.,266:15163-15166 (1991)); and the T7 gene 10 protein peptide tag(Lutz-Freyermuth et al., Proc. Natl. Acad. Sci. USA, 87:6393-6397(1990)).

In various embodiments, the antibodies described herein are conjugatedto a detectable label that may be detected directly or indirectly. Inthis regard, an antibody “conjugate” refers to an anti-IL-1β antibodythat is covalently linked to a detectable label. In the presentinvention, DNA probes, RNA probes, monoclonal antibodies,antigen-binding fragments thereof, and antibody derivatives thereof,such as a single-chain-variable-fragment antibody or an epitope taggedantibody, may all be covalently linked to a detectable label. In “directdetection”, only one detectable antibody is used, i.e., a primarydetectable antibody. Thus, direct detection means that the antibody thatis conjugated to a detectable label may be detected, per se, without theneed for the addition of a second antibody (secondary antibody).

A “detectable label” is a molecule or material that can produce adetectable (such as visually, electronically or otherwise) signal thatindicates the presence and/or concentration of the label in a sample.When conjugated to a antibody, the detectable label can be used tolocate and/or quantify the target to which the specific antibody isdirected. Thereby, the presence and/or concentration of the target in asample can be detected by detecting the signal produced by thedetectable label. A detectable label can be detected directly orindirectly, and several different detectable labels conjugated todifferent specific-antibodies can be used in combination to detect oneor more targets.

Examples of detectable labels, which may be detected directly, includefluorescent dyes and radioactive substances and metal particles. Incontrast, indirect detection requires the application of one or moreadditional antibodies, i.e., secondary antibodies, after application ofthe primary antibody. Thus, the detection is performed by the detectionof the binding of the secondary antibody or binding agent to the primarydetectable antibody. Examples of primary detectable binding agents orantibodies requiring addition of a secondary binding agent or antibodyinclude enzymatic detectable binding agents and hapten detectablebinding agents or antibodies.

In some embodiments, the detectable label is conjugated to a nucleicacid polymer which comprises the first binding agent (e.g., in an ISH,WISH, or FISH process). In other embodiments, the detectable label isconjugated to an antibody which comprises the first binding agent (e.g.,in an IHC process).

Examples of detectable labels which may be conjugated to antibodies usedin the methods of the present disclosure include fluorescent labels,enzyme labels, radioisotopes, chemiluminescent labels,electrochemiluminescent labels, bioluminescent labels, polymers, polymerparticles, metal particles, haptens, and dyes.

Examples of fluorescent labels include 5-(and 6)-carboxyfluorescein, 5-or 6-carboxyfluorescein, 6-(fluorescein)-5-(and 6)-carboxamido hexanoicacid, fluorescein isothiocyanate, rhodamine, tetramethylrhodamine, anddyes such as Cy2, Cy3, and Cy5, optionally substituted coumarinincluding AMCA, PerCP, phycobiliproteins including R-phycoerythrin (RPE)and allophycoerythrin (APC), Texas Red, Princeton Red, green fluorescentprotein (GFP) and analogues thereof, and conjugates of R-phycoerythrinor allophycoerythrin, inorganic fluorescent labels such as particlesbased on semiconductor material like coated CdSe nanocrystallites.

Examples of polymer particle labels include micro particles or latexparticles of polystyrene, PMMA or silica, which can be embedded withfluorescent dyes, or polymer micelles or capsules which contain dyes,enzymes or substrates.

Examples of metal particle labels include gold particles and coated goldparticles, which can be converted by silver stains. Examples of haptensinclude DNP, fluorescein isothiocyanate (FITC), biotin, and digoxigenin.Examples of enzymatic labels include horseradish peroxidase (HRP),alkaline phosphatase (ALP or AP), β-galactosidase (GAL),glucose-6-phosphate dehydrogenase, β-N-acetylglucosamimidase,β-glucuronidase, invertase, Xanthine Oxidase, firefly luciferase andglucose oxidase (GO). Examples of commonly used substrates forhorseradishperoxidase include 3,3′-diaminobenzidine (DAB),diaminobenzidine with nickel enhancement, 3-amino-9-ethylcarbazole(AEC), Benzidine dihydrochloride (BDHC), Hanker-Yates reagent (HYR),Indophane blue (IB), tetramethylbenzidine (TMB), 4-chloro-1-naphtol(CN), .alpha.-naphtol pyronin (.alpha.-NP), o-dianisidine (OD),5-bromo-4-chloro-3-indolylphosp-hate (BCIP), Nitro blue tetrazolium(NBT), 2-(p-iodophenyl)-3-p-nitropheny-I-5-phenyl tetrazolium chloride(INT), tetranitro blue tetrazolium (TNBT),5-bromo-4-chloro-3-indoxyl-beta-D-galactoside/ferro-ferricyanide(BCIG/FF).

Examples of commonly used substrates for Alkaline Phosphatase includeNaphthol-AS-B 1-phosphate/fast red TR (NABP/FR),Naphthol-AS-MX-phosphate/fast red TR (NAMP/FR),Naphthol-AS-B1-phosphate/-fast red TR (NABP/FR),Naphthol-AS-MX-phosphate/fast red TR (NAMP/FR),Naphthol-AS-B1-phosphate/new fuschin (NABP/NF), bromochloroindolylphosphate/nitroblue tetrazolium (BCIP/NBT),5-Bromo-4-chloro-3-indolyl-b—d-galactopyranoside (BCIG).

Examples of luminescent labels include luminol, isoluminol, acridiniumesters, 1,2-dioxetanes and pyridopyridazines. Examples ofelectrochemiluminescent labels include ruthenium derivatives. Examplesof radioactive labels include radioactive isotopes of iodide, cobalt,selenium, tritium, carbon, sulfur and phosphorous.

Detectable labels may be linked to the antibodies described herein or toany other molecule that specifically binds to a biological marker ofinterest, e.g., an antibody, a nucleic acid probe, or a polymer.Furthermore, one of ordinary skill in the art would appreciate thatdetectable labels can also be conjugated to second, and/or third, and/orfourth, and/or fifth binding agents or antibodies, etc. Moreover, theskilled artisan would appreciate that each additional binding agent orantibody used to characterize a biological marker of interest may serveas a signal amplification step. The biological marker may be detectedvisually using, e.g., light microscopy, fluorescent microscopy, electronmicroscopy where the detectable substance is for example a dye, acolloidal gold particle, a luminescent reagent. Visually detectablesubstances bound to a biological marker may also be detected using aspectrophotometer. Where the detectable substance is a radioactiveisotope detection can be visually by autoradiography, or non-visuallyusing a scintillation counter. See, e.g., Larsson, 1988,Immunocytochemistry: Theory and Practice, (CRC Press, Boca Raton, Fla.);Methods in Molecular Biology, vol. 80 1998, John D. Pound (ed.) (HumanaPress, Totowa, N.J.).

The invention further provides kits for detecting IL-1β or cells ortissues expressing IL-1β in a sample, wherein the kits contain at leastone antibody, polypeptide, polynucleotide, vector or host cell asdescribed herein. In certain embodiments, a kit may comprise buffers,enzymes, labels, substrates, beads or other surfaces to which theantibodies of the invention are attached, and the like, and instructionsfor use.

EXAMPLES Example 1 Production and Humanization of Monoclonal Anti-IL-1βAntibodies 1 Antibody Production 1.1 Immunization

Three New Zealand white rabbits were immunized subcutaneously with 0.5mg of recombinant human IL-1β in complete Freund's adjuvant(Sigma-Aldrich Corp., St. Louis, Mo.). After the initial immunization,animals were boosted 5 times with 0.25 mg IL-1β in incomplete Freund'sadjuvant in a 3 week-interval. The rabbit with the highest serum titersand IL-1β neutralizing activity was intravenously boosted with 0.4 mgIL-1β in PBS four days before splenoectomy for cell fusion.

1.2 Antibody Generation

Splenocytes were harvested from the immunized rabbit and fused withrabbit plasmacytoma cells 240E-W2 using PEG4000 (Sigma Chemical, St.Louis, Mo.). After being selected by HAT (hypoxanthine, aminopterin, andthymidine), hybridoma clones growing in the original 96-well plates weretransferred to new 96-well plates with a medium change. Hybridomasupernatants were collected and screened for specific antigen binding.Four hundred hybridomas that were positive in the ELISA binding assaywere selected for functional screening.

1.3 Functional Screening of Hybridomas

For functional screening, the supernatant from the confirmed 400positive clones in 24-well plates were tested for neutralizingIL-1β-induced TF-1 cell (human premyeloid cell line) proliferation.Sixty clones were found to neutralize IL-1β activity. The top 34 clonesthat neutralized IL-1β activity were further selected for molecularcloning and recombinant expression for further functionalcharacterization.

1.4 Recombinant Anti-IL-1β Antibodies

DNA fragments of L chains and the variable region (VH) of H chains ofrabbit IgG from the top 34 clones were amplified by PCR. The L chainfragment was cloned into pTT5 vector at Hind III and Not I sites and theVH fragment into the constant region of H chain built-in pTT5 vector atHind III and Kpn I sites. For each hybridoma, three DNA clones of L or Hchain were sequenced and the plasmid with a consensus sequence wasidentified and used for recombinant expression. To express therecombinant antibody, the L and H chain plasmids were co-transfectedinto 293-6E cells (National Research Council Canada). The supernatantswere harvested 5 days later and quantified using an ELISA assay tomeasure the IgG concentration before functional assays.

1.5 Functional Screening of Recombinant Anti-IL-1β Antibodies

Neutralization of IL-1β-induced TF-1 cell proliferation was performed torank the potency of recombinant antibodies. TF-1 cells cultured in RPMI1640 with 10% FBS were treated with titrated doses of antibodies in thepresence of 400 pg/ml of IL-1β. AlamarBlue was added to assess the cellproliferation after 3 days. The result was shown in following table(Table 1). Highlighted clones with higher activity were selected forfurther functional ranking with purified material.

TABLE 1 Neutralizing activity of antibodies to IL-1β induced TF-1 cellproliferation. Clone ID IC 50 (ng/ml) Q1 >5.9 Q2 >5.9 Q3 >5.9 Q4 >5.9Q5 >5.9 Q6 0.95 Q7 >5.9 Q8 >5.9 Q9 >5.9 Q10 >5.9 Q11 >5.9 Q12 >5.9Q13 >5.9 Q14 >5.9 Q15 >5.9 Q16 1.43 Q17* 1.13 Q18 >5.9 Q19 >5.9 Q20 >5.9Q21 >5.9 Q22 >5.9 Q23 >5.9 Q24 >5.9 Q25 >5.9 Q26* 0.54 Q27 >59. Q28 >5.9Q29 4.6 Q30 >5.9 Q31 >5.9 Q32 0.74 Q33 0.78 Q34* 0.55 Control Mab 5.99*indicated identical DNA sequence of H chain and L chain.

1.6 Functional Ranking of Recombinant Anti-IL-1β Antibodies

Clones Q6, 16, 26, 32, 33 were selected for further functional analysisto assess their potency to neutralize IL-1β activity. All antibodieswere expressed in 293-6E cells and the supernatants were purifiedthrough a protein A column and quantified after dialyzing against PBSbuffer. FIG. 2 shows the dose-dependent inhibition of IL-1β-induced TF-1cell proliferation. Anakinra was used as a positive control. The IC50 ofeach antibody was also calculated. All the clones exhibited more potentIL-1β neutralizing activity as compared to Anakinra. Clone Q26 showedthe highest neutralizing potency.

1.7 Binding Affinity of Anti-IL-1β Antibodies to IL-1β

Antigen binding affinities of anti-IL-1β antibodies were measured bysurface Plasmon resonance (SPR). The Kd of each antibody is shown inTable 2. Clone Q26 showed the highest binding affinity to IL-1β.

TABLE 2 Binding affinities of anti-IL-1β antibodies antibody k_(a)(1/Ms) k_(d) (1/s) K_(D) (nM) Chi² Q6 1.07E5 5.17E−5 0.483 9.56 Q261.91E5  3.8E−5 0.199 8.66 Q32  2.7E5 6.49E−5 0.241 1.96 Q33 1.55E51.23E−4 0.793 0.376 Q16 1.35E5 8.68E−5 0.644 0.176

1.8 Blocking IL-1β-Induced NFκB Nuclear Translocation

The nuclear translocation of NF-kB assay was performed to assess theactivity of clone Q26 to block IL-1β-induced downstream signal. CHO/dhfrcells were treated with 10 ng/ml of IL-1β for 20 minutes. Then cellswere fixed and NF-kB localization was detected with a mouse anti-NF-kBp65 (BD bioscience) and a secondary goat anti-mouse HRP antibody(Immunovision). FIG. 3 is a representative data showing that clone Q26blocks the NF-kB nuclear translocation stimulated by IL-1β.

2. Antibody Humanization 2.1 Humanization Design

Clone Q26 was humanized using a proprietary mutational lineage guided(MLG) humanization technology. First, the heavy chain (VH) and lightchain (VK) variable region sequences of clone Q26 were blasted againstthe human germline VH and VK database. The closest human germlinesequences, VH3-66 and VK-L19 were identified as the template for cloneQ26 humanization. Secondly, antibody sequences within the clone Q26lineage were aligned. The lineage clones have similar sequences in CDRsand contain the same number of amino acid residues in the variableregion. Third, the rabbit residues in the framework regions potentiallyinvolved in CDR contacts or inter-chain contacts were identified basedon the knowledge from human and mouse antibodies. Residues considerednot critical to the structural activity of the antibody based on thephylogenetic analysis were humanized. After MLG engineering, theframeworks of the humanized Q26 is 93.5% identical to the human germlineframeworks. In addition, MLG humanization technology allowed furtherhumanization in CDR1 of H chain and CDR3 of L chain, each differing fromthe parent rabbit antibody by one amino acid (see FIG. 1 and SEQ IDNOs:11 and 12.

2.2 Expression of Humanized Q26

DNA encoding humanized VK and VH of Q26 was synthesized by MCLab (SouthSan Francisco, Calif., USA). The DNA fragment includes signal peptideand a Kozak sequence at the 5′ end. To express the humanized Q26, thehumanized VK fragment was cloned into human CK built-in pTT5 vector atHind III and Nhe I. The humanized VH was cloned into human IgG1 CHbuilt-in pTT5 vector at Hind III and BsiW I site. DNA and amino acidsequences of human CK and IgG1 CH were chosen for the constant region.Humanized Q26 was expressed in 293-6E cells, purified through a proteinA column and quantified by UV280 after dialyzing against PBS buffer.

2.3 Humanized Q26 Retains Biological Activities

The ability of humanized Q26 to inhibit IL-1β-induced TF-1 cellproliferation was examined. Humanized Q26 showed dose-dependentinhibition on IL-1β-stimulated TF-1 cell growth and exhibited similarpotency as its parental rabbit Q26 (FIG. 4). Thus, humanized Q26 waschosen for further preclinical development and was named APX002.

3. Preclinical Development 3.1 In Vitro IL-1β Neutralizing Activity ofAPX002

APX002 is a humanized monoclonal antibody, initially identified from arabbit hybridoma clone Q26. APX002 was selected as the lead because ofits ability to bind specifically to human IL-1β and neutralize IL-1βrelated activities in vitro. It binds to IL-1β with an affinity of1.99×10⁻¹⁰M. In a cross-species reactivity assay, APX002 showedcross-reactivity with monkey IL-1β with similar affinity to human IL-1β,but did not cross-react with mouse IL-1β (FIG. 5).

3.2 Biological Effects of APX002 in an Ex Vivo Model

To further evaluate its biologic activity, APX002 was tested in an exvivo assay using human peripheral blood cells. In this assay, the humanwhole blood cells from 4 donors were stimulated with Staphylococcusepidermidis in the presence of APX002. Upon binding to Toll likereceptor (TLR), Staphylococcus epidermidis triggers IL-1β production,and then IL-1β induces downstream biological effects includingproduction of other cytokines such as IL-6 and TNFα. Thus, IL-6production can be used as readout to measure the ability of APX002 toblock IL-1β. After 24 hours incubation, blood cells were lysed withTriton®-X to extract membrane and intracellular cytokines formeasurement. As shown in table 3, APX002 strongly inhibited theproduction of IL-6 induced by Staphylococcus epidermidis. At both dosestested, APX002 is slightly more potent than Xoma-052, another anti-IL-1βantibody currently under clinical development.

TABLE 3 Inhibition of STAPH-induced IL-6 production by APX002 at 83 pM(upper) and 166 pM (lower). IL-6 was measured by ELISA kit. Xoma-052(antibody agninst IL-1β) was used as a positive control. Antibody %inhibibition of IL-6 production concentration Donor 1 Donor 2 Donor 3Donor 4 Ave. STDEV APX002 30 44 65 30 42 17 12.5 ng/ml (83 pM) Xoma-05249 14 46 48 39 17 12.5 ng/ml (83 pM) APX002 45 61 84 40 58 20 25 ng/ml(166 pM) Xoma-052 60 44 63 62 57 9 25 ng/ml (166 pM)

In other experiments, LPS (TLR ligand) was used to stimulateIL-1β-induced cytokine production using cultured human whole bloodcells. Both high and low doses of APX002 inhibited LPS-induced TNFα andIL-6 production (Table 4). At the lower dose (83 pM), APX002 proved tobe substantially more effective at inhibiting IL-6 and TNFα productionthan Xoma-052. At the higher dose (166 μM), APX002 exhibited similarinhibitory activity to that of Xoma-052.

TABLE 4 Inhibition of LPS-induced IL-6 and TNFα production at 83 pM(upper) and 166 pM (lower) by APX002. IL-6 and TNFα were measured byELISA kits. Xoma-052 was used as a positive control. % inhibibition ofproduction IL-6 TNF α Antibody Donor Donor Concentration CAD Donor E AveCAD Donor E Ave APX002 40 15 27.5 64 18 41 12.5 ng/ml (83 pM) Xoma-052 520 12.5 0 14 7 12.5 ng/ml (83 pM) APX002 52 29 40.5 81 13 47 25 ng/ml(166 pM) Xoma-052 65 30 47.5 30 84 47 25 ng/ml (166 pM)

These ex vivo data using human whole blood cell cultures furtherconfirmed the biological activity of APX002 as a potent IL-1βantagonist.

3.3 In Vivo Efficacy of APX002 in Disease Models.

The fact that APX002 does not cross-react with mouse IL-1β limited theuse of mouse models to evaluate its in vivo pharmacology. As analternative, two animal studies are used to test the in vivo efficacy ofAPX002.•In the human IL-1β-induced mouse model of joint inflammation,the NIH 3T3 fibroblast cell line producing high levels of hIL-1β areinjected into right knee joints of DBA-1 mice to induce hIL-1β-dependentarthritis. APX002 is administered and tested in this model for efficacyin treating inflammation. Further, injection of monosodium urate (MSU)crystals into the monkey air pouch can elicit an acute inflammatoryresponse similar to human gout. APX002 is administered and tested inthis model for efficacy in treating gout.

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The various embodiments described above can be combined to providefurther embodiments. All of the U.S. patents, U.S. patent applicationpublications, U.S. patent application, foreign patents, foreign patentapplication and non-patent publications referred to in thisspecification and/or listed in the Application Data Sheet areincorporated herein by reference, in their entirety. Aspects of theembodiments can be modified, if necessary to employ concepts of thevarious patents, application and publications to provide yet furtherembodiments.

These and other changes can be made to the embodiments in light of theabove-detailed description. In general, in the following claims, theterms used should not be construed to limit the claims to the specificembodiments disclosed in the specification and the claims, but should beconstrued to include all possible embodiments along with the full scopeof equivalents to which such claims are entitled. Accordingly, theclaims are not limited by the disclosure.

1. An isolated antibody, or an antigen-binding fragment thereof, thatbinds to IL-1β, comprising (i) a heavy chain variable region comprisingthe VHCDR1 region set forth in SEQ ID NO:3, the VHCDR2 region set forthin SEQ ID NO:4, and the VHCDR3 region set forth SEQ ID NO:5; and (ii) alight chain variable region comprising the VLCDR1 region set forth inSEQ ID NO:6, the VLCDR2 region set forth in SEQ ID NO:7, and the VLCDR3region set forth in SEQ ID NO: 8; or a variant of said antibody, or anantigen-binding fragment thereof, comprising heavy and light chainvariable regions identical to the heavy and light chain variable regionsof (i) and (ii) except for up to 8 amino acid substitutions in said CDRregions.
 2. The isolated antibody, or antigen-binding fragment thereof,of claim 1 wherein the heavy chain variable region comprises the aminoacid sequence set forth in SEQ ID NO:1.
 3. The isolated antibody, orantigen-binding fragment thereof, of claim 1 wherein the light chainvariable region comprises the amino acid sequence set forth in SEQ IDNO:2.
 4. An isolated antibody, or an antigen-binding fragment thereof,that binds to IL-1β, comprising a heavy chain variable region comprisingthe amino acid sequence set forth in SEQ ID NO:1.
 5. The isolatedantibody, or antigen-binding fragment thereof, of claim 4 comprising alight chain variable region which comprises an amino acid sequencehaving at least 90% identity to the amino acid sequence set forth in SEQID NO:2.
 6. The isolated antibody, or an antigen-binding fragmentthereof, of claim 4 comprising a light chain variable region whichcomprises the amino acid sequence set forth in SEQ ID NO:2.
 7. Anisolated antibody, or an antigen-binding fragment thereof, that binds toIL-1β, comprising a light chain variable region comprising the aminoacid sequence set forth in SEQ ID NO:2.
 8. The isolated antibody, orantigen binding fragment thereof, of claim 7 comprising a heavy chainvariable region which comprises an amino acid sequence having at least90% identity to the amino acid sequence set forth in SEQ ID NO:1.
 9. Theisolated antibody of claim 1, wherein the antibody is humanized.
 10. Theisolated antibody of claim 9, wherein the VH region comprises the aminoacid sequence set forth in SEQ ID NO:9 and the VL region comprises theamino acid sequence set forth in SEQ ID NO:10.
 11. The isolated antibodyof claim 1 wherein the antibody is selected from the group consisting ofa single chain antibody, a ScFv, a univalent antibody lacking a hingeregion, and a minibody.
 12. The isolated antibody of claim 1 wherein theantibody is a Fab or a Fab′ fragment.
 13. (canceled)
 14. (canceled) 15.The isolated antibody of claim 1 comprising a human IgG constant domain.16. The isolated antibody of claim 15 wherein the IgG constant domaincomprises an IgG1 CH1 domain.
 17. (canceled)
 18. An isolated antibody,or an antigen-binding fragment thereof, that competes with the antibodyof claim 1 for binding to IL-1β.
 19. An isolated antibody, orantigen-binding fragment thereof, that binds IL-1β with a KD of 0.199 nMor lower.
 20. An isolated polynucleotide encoding the isolated antibody,or antigen-binding fragment thereof, according to claim
 1. 21.(canceled)
 22. (canceled)
 23. A composition comprising a physiologicallyacceptable carrier and a therapeutically effective amount of theisolated antibody or antigen-binding fragment thereof according toclaim
 1. 24. A method for treating a patient having a disease associatedwith aberrant IL-1β expression, comprising administering to the patientthe composition of claim 23, thereby treating the disease associatedwith aberrant IL-1β expression.
 25. The method of claim 24 wherein thedisease associated with associated with aberrant IL-1β expression isselected from the group consisting of rheumatoid arthritis, diabetes,Cryopyrin-associated periodic syndrome, gout, chronic obstructivepulmonary disorder, atherosclerosis and vasculitis.